[ 原始碼： debian-med ]
套件：med-bio-dev（3.8.1）
Debian Med packages for development of bioinformatics applications
This metapackage will install Debian packages which might be helpful for development of applications for biological research.
其他與 med-bio-dev 有關的套件
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- dep: med-config (= 3.8.1)
- Debian Med general config package
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- dep: med-tasks (= 3.8.1)
- Debian Med tasks for tasksel
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- rec: bio-tradis
- analyse the output from TraDIS analyses of genomic sequences
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- rec: biobambam2
- tools for early stage alignment file processing
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- rec: bioperl
- Perl tools for computational molecular biology
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- rec: bioperl-run
- BioPerl wrappers: scripts
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- rec: biosquid
- utilities for biological sequence analysis
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- rec: cwltool
- Common Workflow Language reference implementation
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- rec: gffread
- GFF/GTF format conversions, region filtering, FASTA sequence extraction
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- rec: goby-java
- next-generation sequencing data and results analysis tool
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- rec: libace-perl
- Object-Oriented Access to ACEDB Databases
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- rec: libai-fann-perl
- Perl wrapper for the FANN library
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- rec: libbambamc-dev
- Development files for reading and writing BAM (genome alignment) files
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- rec: libbamtools-dev
- C++ API for manipulating BAM (genome alignment) files
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- rec: libbigwig-dev
- C library for handling bigWig files - header files
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- rec: libbio-alignio-stockholm-perl
- stockholm sequence input/output stream
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- rec: libbio-asn1-entrezgene-perl
- parser for NCBI Entrez Gene and NCBI Sequence records
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- rec: libbio-chado-schema-perl
- DBIx::Class layer for the Chado database schema
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- rec: libbio-cluster-perl
- BioPerl cluster modules
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- rec: libbio-coordinate-perl
- BioPerl modules for working with biological coordinates
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- rec: libbio-das-lite-perl
- implementation of the BioDas protocol
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- rec: libbio-db-biofetch-perl
- Database object interface to BioFetch retrieval
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- rec: libbio-db-embl-perl
- Database object interface for EMBL entry retrieval
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- rec: libbio-db-hts-perl
- Perl interface to the HTS library
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- rec: libbio-db-ncbihelper-perl
- collection of routines useful for queries to NCBI databases
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- rec: libbio-db-seqfeature-perl
- Normalized feature for use with Bio::DB::SeqFeature::Store
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- rec: libbio-eutilities-perl
- BioPerl interface to the Entrez Programming Utilities (E-utilities)
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- rec: libbio-featureio-perl
- Modules for reading, writing, and manipulating sequence features
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- rec: libbio-graphics-perl
- Generate GD images of Bio::Seq objects
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- rec: libbio-mage-perl
- Container module for classes in the MAGE package: MAGE
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- rec: libbio-mage-utils-perl
- Extra modules for classes in the MAGE package: MAGE
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- rec: libbio-primerdesigner-perl
- Perl module to design PCR primers using primer3 and epcr
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- rec: libbio-samtools-perl
- Perl interface to SamTools library for DNA sequencing
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- rec: libbio-scf-perl
- Perl extension for reading and writing SCF sequence files
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- rec: libbio-tools-phylo-paml-perl
- Bioperl interface to the PAML suite
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- rec: libbio-tools-run-alignment-clustalw-perl
- Bioperl interface to Clustal W
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- rec: libbio-tools-run-alignment-tcoffee-perl
- Bioperl interface to T-Coffee
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- rec: libbio-tools-run-remoteblast-perl
- Object for remote execution of the NCBI Blast via HTTP
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- rec: libbio-variation-perl
- BioPerl variation-related functionality
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- rec: libbiococoa-dev
- Bioinformatics framework for GNUstep and Cocoa (development files)
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- rec: libbiojava-java
- Java API to biological data and applications (default version)
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- rec: libbiojava4-java
- Java API to biological data and applications (default version)
同時作為一個虛擬套件由這些套件填實： libbiojava4-java
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- rec: libbiojava6-java
- Java API to biological data and applications (version 6)
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- rec: libbioparser-dev
- library for parsing several formats in bioinformatics
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- rec: libblasr-dev
- tools for aligning PacBio reads to target sequences (development files)
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- rec: libbpp-core-dev
- Bio++ Core library development files
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- rec: libbpp-phyl-dev
- Bio++ Phylogenetic library development files
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- rec: libbpp-phyl-omics-dev
- Bio++ Phylogenetics library: genomics components (development files)
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- rec: libbpp-popgen-dev
- Bio++ Population Genetics library development files
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- rec: libbpp-qt-dev
- Bio++ Qt Graphic classes library development files
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- rec: libbpp-raa-dev
- Bio++ Remote Acnuc Access library development files
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- rec: libbpp-seq-dev
- Bio++ Sequence library development files
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- rec: libbpp-seq-omics-dev
- Bio++ Sequence library: genomics components (development files)
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- rec: libcdk-java
- Chemistry Development Kit (CDK) Java libraries
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- rec: libchado-perl
- database schema and tools for genomic data
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- rec: libcifpp-dev
- Development files for libcifpp
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- rec: libconsensuscore-dev
- algorithms for PacBio multiple sequence consensus -- development files
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- rec: libdivsufsort-dev
- libdivsufsort header files
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- rec: libedlib-dev
- library for sequence alignment using edit distance (devel)
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- rec: libfast5-dev
- library for reading Oxford Nanopore Fast5 files -- headers
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- rec: libfastahack-dev
- library for indexing and sequence extraction from FASTA files (devel)
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- rec: libffindex0-dev
- library for simple index/database for huge amounts of small files (development)
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- rec: libfml-dev
- development headers for libfml
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- rec: libgatbcore-dev
- development library of the Genome Analysis Toolbox
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- rec: libgclib-dev
- header files for Genome Code Lib (GCLib)
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- rec: libgenome-dev
- toolkit for developing bioinformatic related software (devel)
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- rec: libgenome-model-tools-music-perl
- module for finding mutations of significance in cancer
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- rec: libgenome-perl
- pipelines, tools, and data management for genomics
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- rec: libgenometools0-dev
- development files for GenomeTools
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- rec: libgff-dev
- GFF/GTF parsing from cufflinks as a library
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- rec: libgkarrays-dev
- library to query large collection of NGS sequences (development)
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- rec: libgo-perl
- perl modules for GO and other OBO ontologies
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- rec: libhdf5-dev
- HDF5 - development files - serial version
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- rec: libhmsbeagle-dev
- High-performance lib for Bayesian and Maximum Likelihood phylogenetics (devel)
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- rec: libhts-dev
- development files for the HTSlib
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- rec: libhtscodecs-dev
- Development headers for custom compression for CRAM and others
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- rec: libhtsjdk-java
- Java API for high-throughput sequencing data (HTS) formats
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- rec: libjebl2-java
- Java Evolutionary Biology Library
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- rec: libjloda-java
- Java library of data structures and algorithms for bioinformatics
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- rec: libkmer-dev
- suite of tools for DNA sequence analysis (development lib)
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- rec: libmems-dev
- development library to support DNA string matching and comparative genomics
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- rec: libminimap2-dev
- development headers for libminimap
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- rec: libmuscle-dev
- multiple alignment development library for protein sequences
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- rec: libncbi-vdb-dev
- libraries for using data in the INSDC Sequence Read Archives (devel)
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- rec: libncbi6-dev
- NCBI libraries for biology applications (development files)
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- rec: libncl-dev
- NEXUS Class Library (static lib and header files)
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- rec: libngs-java
- Next Generation Sequencing language Bindings (Java bindings)
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- rec: libnhgri-blastall-perl
- Perl extension for running and parsing NCBI's BLAST 2.x
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- rec: libopenmm-dev
- C++ header files for the OpenMM library
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- rec: libopenms-dev
- library for LC/MS data management and analysis - dev files
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- rec: libpal-java
- Phylogenetic Analysis Library
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- rec: libparasail-dev
- Development heaaders and static libraries for parasail
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- rec: libpbbam-dev
- Pacific Biosciences binary alignment/map (BAM) library (headers)
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- rec: libpbdata-dev
- tools for handling PacBio sequences (development files)
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- rec: libpbihdf-dev
- tools for handling PacBio hdf5 files (development files)
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- rec: libpbseq-dev
- library for analyzing PacBio sequencing data (development files)
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- rec: libpdb-redo-dev
- Development files for libpdb-redo
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- rec: libpll-dev
- Phylogenetic Likelihood Library (development)
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- rec: libpwiz-dev
- library to perform proteomics data analyses (devel files)
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- rec: libqes-dev
- DNA sequence parsing library -- development
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- rec: librcsb-core-wrapper0-dev
- development files for librcsb-core-wrapper0
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- rec: librdp-taxonomy-tree-java
- taxonomy tree library from Ribosomal Database Project (RDP)
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- rec: librg-blast-parser-perl
- very fast NCBI BLAST parser - binding for Perl
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- rec: librg-reprof-bundle-perl
- protein secondary structure and accessibility predictor (perl module)
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- rec: librostlab-blast0-dev
- very fast C++ library for parsing the output of NCBI BLAST programs (devel)
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- rec: librostlab3-dev
- C++ library for computational biology (development)
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- rec: libsbml5-dev
- System Biology Markup Language library - development files
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- rec: libseqan2-dev
- C++ library for the analysis of biological sequences (development)
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- rec: libseqan3-dev
- C++ library for the analysis of biological sequences v3 (development)
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- rec: libseqlib-dev
- C++ htslib/bwa-mem/fermi interface for interrogating sequence data (dev)
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- rec: libslow5-dev
- header and static library for reading & writing SLOW5 files
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- rec: libsmithwaterman-dev
- determine similar regions between two strings or genomic sequences (devel)
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- rec: libsnp-sites1-dev
- Static libraries and header files for the package snp-sites
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- rec: libsort-key-top-perl
- Perl module to select and sort top n elements of a list
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- rec: libspoa-dev
- SIMD partial order alignment library (development files)
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- rec: libsrf-dev
- C++ implementation of the SRF format for DNA sequence data
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- rec: libssm-dev
- macromolecular superposition library - development files
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- rec: libssu-dev
- high-performance phylogenetic diversity calculations (dev)
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- rec: libssw-dev
- Development headers and static libraries for libssw
同時作為一個虛擬套件由這些套件填實： libssw-dev
-
- rec: libssw-java
- Java bindings for libssw
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- rec: libstaden-read-dev
- development files for libstaden-read
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- rec: libstatgen-dev
- development files for the libStatGen
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- rec: libswiss-perl
- Perl API to the UniProt database
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- rec: libtabixpp-dev
- C++ wrapper to tabix indexer (development files)
同時作為一個虛擬套件由這些套件填實： libtabixpp-dev
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- rec: libthread-pool-dev
- C++ header-only thread pool library (devel)
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- rec: libvcflib-dev
- C++ library for parsing and manipulating VCF files (development)
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- rec: libvibrant6-dev
- NCBI libraries for graphic biology applications (development files)
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- rec: libwfa2-dev
- exact gap-affine algorithm (development)
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- rec: libzerg-perl
- fast perl module for parsing the output of NCBI BLAST programs
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- rec: libzerg0-dev
- development libraries and header files for libzerg
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- rec: mcl
- Markov Cluster algorithm
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- rec: nim-hts-dev
- wrapper for hts C library
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- rec: nim-kexpr-dev
- kexpr math expressions for nim
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- rec: nim-lapper-dev
- simple, fast interval searches for nim
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- rec: ont-fast5-api
- simple interface to HDF5 files of the Oxford Nanopore .fast5 file format
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- rec: pyfai
- Fast Azimuthal Integration scripts
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- rec: python3-airr
- Data Representation Standard library for antibody and TCR sequences
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- rec: python3-anndata
- annotated gene by sample numpy matrix
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- rec: python3-bcbio-gff
- Python3 library to read and write Generic Feature Format
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- rec: python3-bioframe
- library to enable flexible, scalable operations on genomic interval dataframes
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- rec: python3-biom-format
- Biological Observation Matrix (BIOM) format (Python 3)
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- rec: python3-biomaj3
- BioMAJ workflow management library
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- rec: python3-biopython
- Python3 library for bioinformatics
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- rec: python3-biotools
- Python3 bioinformatics utilities for high-throughput genomic sequencing
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- rec: python3-bx
- library to manage genomic data and its alignment
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- rec: python3-cgecore
- Python3 module for the Center for Genomic Epidemiology
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- rec: python3-cigar
- manipulate SAM cigar strings
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- rec: python3-cobra
- constraint-based modeling of biological networks with Python 3
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- rec: python3-cogent3
- framework for genomic biology
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- rec: python3-cooler
- library for a sparse, compressed, binary persistent storage
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- rec: python3-corepywrap
- library that exports C++ mmCIF accessors to Python3
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- rec: python3-csb
- Python framework for structural bioinformatics (Python3 version)
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- rec: python3-cutadapt
- Clean biological sequences from high-throughput sequencing reads (Python 3)
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- rec: python3-cyvcf2
- VCF parser based on htslib (Python 3)
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- rec: python3-deeptools
- platform for exploring biological deep-sequencing data
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- rec: python3-deeptoolsintervals
- handlig GTF-like sequence-associated interal-annotation
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- rec: python3-dendropy
- DendroPy Phylogenetic Computing Library (Python 3)
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- rec: python3-dnaio
- Python 3 library for fast parsing of FASTQ and FASTA files
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- rec: python3-ete3
- Python Environment for (phylogenetic) Tree Exploration - Python 3.X
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- rec: python3-fast5
- library for reading Oxford Nanopore Fast5 files -- Python 3
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- rec: python3-freecontact
- fast protein contact predictor - binding for Python3
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- rec: python3-gfapy
- flexible and extensible software library for handling sequence graphs
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- rec: python3-gffutils
- Work with GFF and GTF files in a flexible database framework
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- rec: python3-gtfparse
- parser for gene transfer format (aka GFF2)
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- rec: python3-htseq
- Python3 high-throughput genome sequencing read analysis utilities
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- rec: python3-intervaltree-bio
- Interval tree convenience classes for genomic data -- Python 3 library
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- rec: python3-kineticstools
- detection of DNA modifications (Python 3 library)
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- rec: python3-loompy
- access loom formatted files for bioinformatics
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- rec: python3-mirtop
- annotate miRNAs with a standard mirna/isomir naming (Python 3)
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- rec: python3-nanoget
- extract information from Oxford Nanopore sequencing data and alignments
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- rec: python3-ngs
- Next Generation Sequencing language Bindings (Python3 bindings)
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- rec: python3-pairix
- 1D/2D indexing and querying with a pair of genomic coordinates
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- rec: python3-pangolearn
- store of the trained model for pangolin to access
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- rec: python3-parasail
- Python3 bindings for the parasail C library
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- rec: python3-pbcommand
- common command-line interface for Pacific Biosciences analysis modules
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- rec: python3-pbconsensuscore
- algorithms for PacBio multiple sequence consensus -- Python 3
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- rec: python3-pbcore
- Python 3 library for processing PacBio data files
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- rec: python3-peptidebuilder
- generate atomic oligopeptide 3D structure from sequence
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- rec: python3-presto
- toolkit for processing B and T cell sequences (Python3 module)
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- rec: python3-propka
- heuristic pKa calculations with ligands (Python 3)
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- rec: python3-py2bit
- access to 2bit files
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- rec: python3-pyabpoa
- adaptive banded Partial Order Alignment - python3 module
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- rec: python3-pyani
- Python3 module for average nucleotide identity analyses
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- rec: python3-pybedtools
- Python 3 wrapper around BEDTools for bioinformatics work
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- rec: python3-pybel
- Biological Expression Language
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- rec: python3-pybigwig
- Python 3 module for quick access to bigBed and bigWig files
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- rec: python3-pyfaidx
- efficient random access to fasta subsequences for Python 3
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- rec: python3-pyfastx
- fast random access to sequences from FASTA/Q file - python3 module
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- rec: python3-pymummer
- Python 3 interface to MUMmer
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- rec: python3-pyranges
- 2D representation of genomic intervals and their annotations
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- rec: python3-pysam
- interface for the SAM/BAM sequence alignment and mapping format (Python 3)
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- rec: python3-pyspoa
- Python bindings to spoa
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- rec: python3-pyvcf
- 本虛擬套件由這些套件填實： python3-vcf
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- rec: python3-rdkit
- Collection of cheminformatics and machine-learning software
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- rec: python3-ruffus
- Python3 computation pipeline library widely used in bioinformatics
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- rec: python3-screed
- short nucleotide read sequence utils in Python 3
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- rec: python3-shasta
- nanopore whole genome assembly (dynamic library)
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- rec: python3-skbio
- Python3 data structures, algorithms, educational resources for bioinformatic
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- rec: python3-slow5
- Python3 modul for reading & writing SLOW5 files
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- rec: python3-sqt
- SeQuencing Tools for biological DNA/RNA high-throughput data
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- rec: python3-streamz
- build pipelines to manage continuous streams of data
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- rec: python3-tinyalign
- numerical representation of differences between strings
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- rec: python3-torch
- Tensors and Dynamic neural networks in Python (Python Interface)
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- rec: python3-treetime
- inference of time stamped phylogenies and ancestral reconstruction (Python 3)
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- rec: python3-unifrac
- high-performance phylogenetic diversity calculations
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- rec: python3-wdlparse
- Workflow Description Language (WDL) parser for Python
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- rec: r-bioc-biobase
- base functions for Bioconductor
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- rec: r-cran-boolnet
- assembling, analyzing and visualizing Boolean networks
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- rec: r-cran-corrplot
- Visualization of a Correlation Matrix
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- rec: r-cran-distory
- GNU R distance between phylogenetic histories
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- rec: r-cran-fitdistrplus
- support fit of parametric distribution
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- rec: r-cran-forecast
- GNU R forecasting functions for time series and linear models
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- rec: r-cran-genetics
- GNU R package for population genetics
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- rec: r-cran-gprofiler2
- Interface to the 'g:Profiler' Toolset
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- rec: r-cran-haplo.stats
- GNU R package for haplotype analysis
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- rec: r-cran-metamix
- GNU R bayesian mixture analysis for metagenomic community profiling
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- rec: r-cran-phangorn
- GNU R package for phylogenetic analysis
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- rec: r-cran-pheatmap
- GNU R package to create pretty heatmaps
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- rec: r-cran-phylobase
- GNU R base package for phylogenetic structures and comparative data
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- rec: r-cran-pscbs
- R package: Analysis of Parent-Specific DNA Copy Numbers
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- rec: r-cran-qqman
- R package for visualizing GWAS results using Q-Q and manhattan plots
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- rec: r-cran-rentrez
- GNU R interface to the NCBI's EUtils API
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- rec: r-cran-rncl
- GNU R interface to the Nexus Class Library
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- rec: r-cran-rnexml
- GNU R package for semantically rich I/O for the 'NeXML' format
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- rec: r-cran-rotl
- GNU R interface to the 'Open Tree of Life' API
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- rec: r-cran-samr
- GNU R significance analysis of microarrays
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- rec: r-cran-sctransform
- Variance Stabilizing Transformations for Single Cell UMI Data
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- rec: r-cran-seqinr
- GNU R biological sequences retrieval and analysis
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- rec: r-cran-seurat
- Tools for Single Cell Genomics
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- rec: r-cran-tsne
- t-distributed stochastic neighbor embedding for R (t-SNE)
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- rec: r-cran-vegan
- Community Ecology Package for R
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- rec: r-cran-webgestaltr
- find over-represented properties in gene lists
-
- rec: ruby-bio
- Ruby tools for computational molecular biology
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- rec: ruby-crb-blast
- Run conditional reciprocal best blast
-
- rec: sbmltoolbox
- libsbml toolbox for octave and matlab
-
- rec: snakemake
- pythonic workflow management system
-
- rec: toil
- cross-platform workflow engine
-
- sug: bioclipse
- 套件暫時不可用
-
- sug: capsule-nextflow
- packaging and deployment tool for Java applications
-
- sug: conda-package-handling
- create and extract conda packages of various formats
-
- sug: ctdconverter
- Convert CTD files into Galaxy tool and CWL CommandLineTool files
-
- sug: cthreadpool-dev
- minimal ANSI C thread pool - development files
-
- sug: cwlformat
- code formatter for Common Workflow Language
-
- sug: libargs-dev
- simple header-only C++ argument parser library
-
- sug: libatomicqueue-dev
- 套件暫時不可用
-
- sug: libbam-dev
- manipulates nucleotide sequence alignments in BAM or SAM format
-
- sug: libbbhash-dev
- bloom-filter based minimal perfect hash function library
-
- sug: libbiosoup-dev
- C++ header-only support library for bioinformatics tools
-
- sug: libbtllib-dev
- Bioinformatics Technology Lab common code library
-
- sug: libcapsule-maven-nextflow-java
- packaging tool for Java applications with Maven coordinates
-
- sug: libconcurrentqueue-dev
- industrial-strength lock-free queue for C++
-
- sug: libdisorder-dev
- library for entropy measurement of byte streams (devel)
-
- sug: libfast-perl
- 套件暫時不可用
-
- sug: libforester-java
- 套件暫時不可用
-
- sug: libfreecontact-dev
- fast protein contact predictor library - development files
同時作為一個虛擬套件由這些套件填實： libfreecontact-dev
-
- sug: libfreecontact-doc
- documentation for libfreecontact
-
- sug: libfreecontact-perl
- fast protein contact predictor - binding for Perl
-
- sug: libgatk-bwamem-java
- interface to call Heng Li's bwa mem aligner from Java code
-
- sug: libgatk-bwamem-jni
- interface to call Heng Li's bwa mem aligner from Java code (jni)
-
- sug: libgatk-fermilite-java
- interface to call Heng Li's fermi-lite assembler from Java code
-
- sug: libgatk-fermilite-jni
- interface to call Heng Li's fermi-lite assembler from Java code (jni)
-
- sug: libgatk-native-bindings-java
- library of native bindings for gatk and picard-tools
-
- sug: libgenomicsdb-dev
- sparse array storage library for genomics (development files)
-
- sug: libgenomicsdb-java
- sparse array storage library for genomics (Java library)
-
- sug: libicb-utils-java
- Java library of utilities to manage files and compute statistics
-
- sug: libmaus2-dev
- collection of data structures and algorithms for biobambam (devel)
-
- sug: libmilib-java
- library for Next Generation Sequencing (NGS) data processing
-
- sug: libminimap-dev
- development headers for libminimap
-
- sug: libmmblib-dev
- 套件暫時不可用
-
- sug: libmodhmm-dev
- library for constructing, training and scoring hidden Markov models (dev)
-
- sug: libnexml-java
- 套件暫時不可用
-
- sug: libngs-sdk-dev
- 套件暫時不可用
-
- sug: libpbcopper-dev
- data structures, algorithms, and utilities for C++ applications -- header files
-
- sug: libqcpp-dev
- 套件暫時不可用
-
- sug: librelion-dev
- 套件暫時不可用
-
- sug: libroadrunner-dev
- 套件暫時不可用
-
- sug: librostlab-blast-doc
- very fast C++ library for parsing the output of NCBI BLAST programs (doc)
-
- sug: librostlab-doc
- C++ library for computational biology (documentation)
-
- sug: libsavvy-dev
- C++ interface for the SAV file format
-
- sug: libsuma-dev
- headers and static library for sumatra and sumaclust
-
- sug: libsvmloc-dev
- PSORTb adapted library for svm machine-learning library (dev)
-
- sug: libswarm2-dev
- 套件暫時不可用
-
- sug: libterraces-dev
- enumerate terraces in phylogenetic tree space (development lib)
-
- sug: libtfbs-perl
- scanning DNA sequence with a position weight matrix
-
- sug: libvbz-hdf-plugin-dev
- VBZ compression plugin for nanopore signal data (devel)
-
- sug: libxxsds-dynamic-dev
- succinct and compressed fully-dynamic data structures library
-
- sug: octace-bioinfo
- 套件暫時不可用
-
- sug: python-biopython-doc
- Documentation for the Biopython library
-
- sug: python3-alignlib
- edit and Hamming distances for biological sequences
-
- sug: python3-bcbio
- library for analysing high-throughput sequencing data
-
- sug: python3-bel-resources
- Python3 utilities for BEL resource files
-
- sug: python3-bioblend
- CloudMan and Galaxy API library (Python 3)
-
- sug: python3-biopython-sql
- Biopython support for the BioSQL database schema (Python 3)
-
- sug: python3-cgelib
- Python3 code to be utilized across the CGE tools
-
- sug: python3-compclust
- 套件暫時不可用
-
- sug: python3-conda-package-streaming
- fetch conda metadata
-
- sug: python3-consensuscore2
- 套件暫時不可用
-
- sug: python3-ctdopts
- Gives your Python tools a CTD-compatible interface
-
- sug: python3-galaxy-lib
- 套件暫時不可用
-
- sug: python3-intake
- lightweight package for finding and investigating data
-
- sug: python3-joypy
- ridgeline-/joyplots plotting routine
-
- sug: python3-misopy
- 套件暫時不可用
-
- sug: python3-ncls
- datastructure for interval overlap queries
-
- sug: python3-networkx
- tool to create, manipulate and study complex networks (Python3)
-
- sug: python3-pycosat
- Python bindings to picosat
-
- sug: python3-pyflow
- lightweight parallel task engine for Python
-
- sug: python3-roadrunner
- 套件暫時不可用
-
- sug: python3-scanpy
- 套件暫時不可用
-
- sug: python3-seqcluster
- analysis of small RNA in NGS data
-
- sug: q2-alignment
- QIIME 2 plugin for generating and manipulating alignments
-
- sug: q2-composition
- 套件暫時不可用
-
- sug: q2-cutadapt
- QIIME 2 plugin to work with adapters in sequence data
-
- sug: q2-dada2
- QIIME 2 plugin to work with adapters in sequence data
-
- sug: q2-deblur
- 套件暫時不可用
-
- sug: q2-demux
- QIIME 2 plugin for demultiplexing of sequence reads
-
- sug: q2-diversity
- 套件暫時不可用
-
- sug: q2-emperor
- QIIME2 plugin for display of ordination plots
-
- sug: q2-feature-classifier
- QIIME 2 plugin supporting taxonomic classification
-
- sug: q2-feature-table
- QIIME 2 plugin supporting operations on feature tables
-
- sug: q2-fragment-insertion
- QIIME 2 plugin for fragment insertion
-
- sug: q2-gneiss
- 套件暫時不可用
-
- sug: q2-longitudinal
- 套件暫時不可用
-
- sug: q2-metadata
- QIIME 2 plugin for working with and visualizing Metadata
-
- sug: q2-phylogeny
- QIIME 2 plugin for phylogeny
-
- sug: q2-quality-control
- QIIME 2 plugin for quality assurance of feature and sequence data
-
- sug: q2-quality-filter
- QIIME2 plugin for PHRED-based filtering and trimming
-
- sug: q2-sample-classifier
- QIIME 2 plugin for machine learning prediction of sample data
-
- sug: q2-shogun
- 套件暫時不可用
-
- sug: q2-taxa
- QIIME 2 plugin for working with feature taxonomy annotations
-
- sug: q2-types
- QIIME 2 plugin defining types for microbiome analysis
-
- sug: q2-vsearch
- 套件暫時不可用
-
- sug: q2cli
- Click-based command line interface for QIIME 2
-
- sug: q2cwl
- 套件暫時不可用
-
- sug: q2lint
- 套件暫時不可用
-
- sug: q2templates
- Design template package for QIIME 2 Plugins
-
- sug: qiime
- Quantitative Insights Into Microbial Ecology
-
- sug: r-bioc-affxparser
- Affymetrix File Parsing SDK
-
- sug: r-bioc-affy
- BioConductor methods for Affymetrix Oligonucleotide Arrays
-
- sug: r-bioc-affyio
- BioConductor tools for parsing Affymetrix data files
-
- sug: r-bioc-altcdfenvs
- BioConductor alternative CDF environments
-
- sug: r-bioc-annotate
- BioConductor annotation for microarrays
-
- sug: r-bioc-annotationdbi
- GNU R Annotation Database Interface for BioConductor
-
- sug: r-bioc-annotationhub
- GNU R client to access AnnotationHub resources
-
- sug: r-bioc-aroma.light
- BioConductor methods normalization and visualization of microarray data
-
- sug: r-bioc-arrayexpress
- access to the ArrayExpress Microarray Database at EBI
-
- sug: r-bioc-biocgenerics
- generic functions for Bioconductor
-
- sug: r-bioc-biocneighbors
- Nearest Neighbor Detection for Bioconductor Packages
-
- sug: r-bioc-biomart
- GNU R Interface to BioMart databases (Ensembl, COSMIC, Wormbase and Gramene)
-
- sug: r-bioc-biomformat
- GNU R interface package for the BIOM file format
-
- sug: r-bioc-biostrings
- GNU R string objects representing biological sequences
-
- sug: r-bioc-biovizbase
- GNU R basic graphic utilities for visualization of genomic data
-
- sug: r-bioc-bitseq
- 套件暫時不可用
-
- sug: r-bioc-bridgedbr
- 套件暫時不可用
-
- sug: r-bioc-bsgenome
- BioConductor infrastructure for Biostrings-based genome data packages
-
- sug: r-bioc-cager
- 套件暫時不可用
-
- sug: r-bioc-cner
- CNE Detection and Visualization
-
- sug: r-bioc-complexheatmap
- make complex heatmaps using GNU R
-
- sug: r-bioc-ctc
- Cluster and Tree Conversion
-
- sug: r-bioc-cummerbund
- tool for analysis of Cufflinks RNA-Seq output
-
- sug: r-bioc-dada2
- sample inference from amplicon sequencing data
-
- sug: r-bioc-deseq
- GNU R differential gene expression analysis
-
- sug: r-bioc-deseq2
- R package for RNA-Seq Differential Expression Analysis
-
- sug: r-bioc-dnacopy
- R package: DNA copy number data analysis
-
- sug: r-bioc-ebseq
- R package for RNA-Seq Differential Expression Analysis
-
- sug: r-bioc-enrichedheatmap
- 套件暫時不可用
-
- sug: r-bioc-ensembldb
- GNU R utilities to create and use an Ensembl based annotation database
-
- sug: r-bioc-genefilter
- methods for filtering genes from microarray experiments
-
- sug: r-bioc-geneplotter
- R package of functions for plotting genomic data
-
- sug: r-bioc-genomeinfodb
- BioConductor utilities for manipulating chromosome identifiers
-
- sug: r-bioc-genomicalignments
- BioConductor representation and manipulation of short genomic alignments
-
- sug: r-bioc-genomicfeatures
- GNU R tools for making and manipulating transcript centric annotations
-
- sug: r-bioc-genomicranges
- BioConductor representation and manipulation of genomic intervals
-
- sug: r-bioc-geoquery
- Get data from NCBI Gene Expression Omnibus (GEO)
-
- sug: r-bioc-go.db
- annotation maps describing the entire Gene Ontology
-
- sug: r-bioc-graph
- handle graph data structures for BioConductor
-
- sug: r-bioc-gseabase
- Gene set enrichment data structures and methods
-
- sug: r-bioc-gsva
- Gene Set Variation Analysis for microarray and RNA-seq data
-
- sug: r-bioc-gviz
- Plotting data and annotation information along genomic coordinates
-
- sug: r-bioc-hypergraph
- BioConductor hypergraph data structures
-
- sug: r-bioc-impute
- Imputation for microarray data
-
- sug: r-bioc-iranges
- GNU R low-level containers for storing sets of integer ranges
-
- sug: r-bioc-limma
- linear models for microarray data
-
- sug: r-bioc-makecdfenv
- BioConductor CDF Environment Maker
-
- sug: r-bioc-mergeomics
- Integrative network analysis of omics data
-
- sug: r-bioc-metagenomeseq
- GNU R statistical analysis for sparse high-throughput sequencing
-
- sug: r-bioc-mofa
- Multi-Omics Factor Analysis (MOFA)
-
- sug: r-bioc-multiassayexperiment
- Software for integrating multi-omics experiments in BioConductor
-
- sug: r-bioc-nanostringqcpro
- processing and QA for NanoString mRNA expression data
-
- sug: r-bioc-oligo
- Preprocessing tools for oligonucleotide arrays
-
- sug: r-bioc-oligoclasses
- Classes for high-throughput arrays supported by oligo and crlmm
-
- sug: r-bioc-org.hs.eg.db
- genome-wide annotation for Human
-
- sug: r-bioc-pcamethods
- BioConductor collection of PCA methods
-
- sug: r-bioc-phyloseq
- GNU R handling and analysis of high-throughput microbiome census data
-
- sug: r-bioc-preprocesscore
- BioConductor collection of pre-processing functions
-
- sug: r-bioc-purecn
- copy number calling and SNV classification using targeted short read sequencing
-
- sug: r-bioc-qusage
- qusage: Quantitative Set Analysis for Gene Expression
-
- sug: r-bioc-rbgl
- R interface to the graph algorithms contained in the BOOST library
-
- sug: r-bioc-rentrez
- 套件暫時不可用
-
- sug: r-bioc-rsamtools
- GNU R binary alignment (BAM), variant call (BCF), or tabix file import
-
- sug: r-bioc-rtracklayer
- GNU R interface to genome browsers and their annotation tracks
-
- sug: r-bioc-s4vectors
- BioConductor S4 implementation of vectors and lists
-
- sug: r-bioc-savr
- GNU R parse and analyze Illumina SAV files
-
- sug: r-bioc-shortread
- GNU R classes and methods for high-throughput short-read sequencing data
-
- sug: r-bioc-snpstats
- BioConductor SnpMatrix and XSnpMatrix classes and methods
-
- sug: r-bioc-structuralvariantannotation
- Variant annotations for structural variants
-
- sug: r-bioc-tfbstools
- GNU R Transcription Factor Binding Site (TFBS) Analysis
-
- sug: r-bioc-titancna
- Subclonal copy number and LOH prediction from whole genome sequencing
-
- sug: r-bioc-tximport
- transcript-level estimates for biological sequencing
-
- sug: r-bioc-variantannotation
- BioConductor annotation of genetic variants
-
- sug: r-bioc-xvector
- BioConductor representation and manpulation of external sequences
-
- sug: r-cran-adegenet
- GNU R exploratory analysis of genetic and genomic data
-
- sug: r-cran-adephylo
- GNU R exploratory analyses for the phylogenetic comparative method
-
- sug: r-cran-amap
- Another Multidimensional Analysis Package
-
- sug: r-cran-biwt
- biweight mean vector and covariance and correlation
-
- sug: r-cran-drinsight
- 套件暫時不可用
-
- sug: r-cran-dt
- GNU R wrapper of the JavaScript library 'DataTables'
-
- sug: r-cran-dynamictreecut
- Methods for Detection of Clusters in Hierarchical Clustering
-
- sug: r-cran-fastcluster
- Fast hierarchical clustering routines for GNU R
-
- sug: r-cran-future.apply
- apply function to elements in parallel using futures
-
- sug: r-cran-future.batchtools
- Future API for Parallel and Distributed Processing
-
- sug: r-cran-ica
- Independent Component Analysis
-
- sug: r-cran-itertools
- Iterator Tools
-
- sug: r-cran-kaos
- Encoding of Sequences Based on Frequency Matrix Chaos
-
- sug: r-cran-metap
- Meta-Analysis of Significance Values
-
- sug: r-cran-minerva
- Maximal Information-Based Nonparametric Exploration
-
- sug: r-cran-natserv
- GNU R 'NatureServe' Interface
-
- sug: r-cran-nmf
- GNU R framework to perform non-negative matrix factorization
-
- sug: r-cran-optimalcutpoints
- Computing Optimal Cutpoints in Diagnostic Tests
-
- sug: r-cran-parmigene
- Parallel Mutual Information to establish Gene Networks
-
- sug: r-cran-pcapp
- Robust PCA by Projection Pursuit
-
- sug: r-cran-proc
- Display and Analyze ROC Curves
-
- sug: r-cran-rann
- Fast Nearest Neighbour Search Using L2 Metric
-
- sug: r-cran-rcpphnsw
- R bindings for a Library for Approximate Nearest Neighbors
-
- sug: r-cran-robustrankaggreg
- Methods for robust rank aggregation
-
- sug: r-cran-rocr
- GNU R package to prepare and display ROC curves
-
- sug: r-cran-rook
- web server interface for R
-
- sug: r-cran-rsvd
- Randomized Singular Value Decomposition
-
- sug: r-cran-shazam
- Immunoglobulin Somatic Hypermutation Analysis
-
- sug: r-cran-sitmo
- GNU R parallel pseudo random number generator 'sitmo' header files
-
- sug: r-cran-venndiagram
- Generate High-Resolution Venn and Euler Plots
-
- sug: r-other-apmswapp
- 套件暫時不可用
-
- sug: ruby-rgfa
- parse, edit and write GFA format graphs in Ruby
-
- sug: vdjtools
- framework for post-analysis of B/T cell repertoires