Paket: augustus (3.5.0+dfsg-4 och andra) [debports]
Länkar för augustus
Debianresurser:
Hämta källkodspaketet :
Hittades ejAnsvariga:
Externa resurser:
- Hemsida [bioinf.uni-greifswald.de]
Liknande paket:
gene prediction in eukaryotic genomes
AUGUSTUS is a software for gene prediction in eukaryotic genomic sequences that is based on a generalized hidden Markov model (HMM), a probabilistic model of a sequence and its gene structure. After learning gene structures from a reference annotation, AUGUSTUS uses the HMM to recognize genes in a new sequence and annotates it with the regions of identified genes. External hints, e.g. from RNA sequencing, EST or protein alignments etc. can be used to guide and improve the gene finding process. The result is the set of most likely gene structures that comply with all given user constraints, if such gene structures exist. AUGUSTUS already includes prebuilt HMMs for many species, as well as scripts to train custom models using annotated genomes.
Andra paket besläktade med augustus
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- dep: augustus-data
- data files for AUGUSTUS
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- dep: libbamtools2.5.2 (>= 2.5.2+dfsg)
- dynamic library for manipulating BAM (genome alignment) files
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- dep: libboost-iostreams1.83.0 (>= 1.83.0)
- Boost.Iostreams Library
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- dep: libc6.1 (>= 2.34)
- GNU C-bibliotek: Delade bibliotek
också ett virtuellt paket som tillhandahålls av libc6.1-udeb
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- dep: libcolamd3 (>= 1:7.0.1)
- column approximate minimum degree ordering library for sparse matrices
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- dep: libgcc-s1 (>= 3.4)
- GCC stödbibliotek
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- dep: libgsl28 (>= 2.8+dfsg)
- GNU Scientific Library (GSL) -- library package
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- dep: libhts3t64 (>= 1.17)
- C library for high-throughput sequencing data formats
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- dep: libmariadb3 (>= 3.0.0)
- MariaDB database client library
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- dep: libmysql++3t64
- MySQL C++ library bindings (runtime)
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- dep: libsqlite3-0 (>= 3.5.9)
- SQLite 3 shared library
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- dep: libstdc++6 (>= 14)
- GNU standardbibliotek v3 för C++
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- rec: samtools
- processing sequence alignments in SAM, BAM and CRAM formats
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- sug: cdbfasta
- Constant DataBase indexing and retrieval tools for multi-FASTA files
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- sug: diamond-aligner
- accelerated BLAST compatible local sequence aligner
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- sug: libdbd-mysql-perl
- Perl5 database interface to the MariaDB/MySQL database
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- sug: libfile-which-perl
- Perl module for searching paths for executable programs
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- sug: libparallel-forkmanager-perl
- simple parallel processing fork manager for Perl
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- sug: libyaml-perl
- YAML Ain't Markup Language
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- sug: python3-biopython
- Python3 library for bioinformatics
Hämta augustus
Arkitektur | Version | Paketstorlek | Installerad storlek | Filer |
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alpha (inofficiell anpassning) | 3.5.0+dfsg-4+b5 | 1.897,4 kbyte | 13.079,0 kbyte | [filförteckning] |