[ 原始碼： trinityrnaseq ]
套件：trinityrnaseq（2.6.6+dfsg-6）
trinityrnaseq 的相關連結
Debian 的資源：
下載原始碼套件 trinityrnaseq：
- [trinityrnaseq_2.6.6+dfsg-6.dsc]
- [trinityrnaseq_2.6.6+dfsg.orig.tar.xz]
- [trinityrnaseq_2.6.6+dfsg-6.debian.tar.xz]
維護小組：
外部的資源：
- 主頁 [trinityrnaseq.github.io]
相似套件：
RNA-Seq De novo Assembly
Trinity represents a novel method for the efficient and robust de novo reconstruction of transcriptomes from RNA-seq data. Trinity combines three independent software modules: Inchworm, Chrysalis, and Butterfly, applied sequentially to process large volumes of RNA-seq reads. Trinity partitions the sequence data into many individual de Bruijn graphs, each representing the transcriptional complexity at a given gene or locus, and then processes each graph independently to extract full-length splicing isoforms and to tease apart transcripts derived from paralogous genes.
其他與 trinityrnaseq 有關的套件
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- dep: berkeley-express
- Streaming quantification for high-throughput sequencing
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- dep: bowtie
- Ultrafast memory-efficient short read aligner
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- dep: bowtie2
- ultrafast memory-efficient short read aligner
-
- dep: curl
- command line tool for transferring data with URL syntax
-
- dep: default-jre-headless
- Standard Java or Java compatible Runtime (headless)
-
- dep: jaligner
- Smith-Waterman algorithm with Gotoh's improvement
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- dep: jellyfish
- count k-mers in DNA sequences
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- dep: libc6 (>= 2.27)
- GNU C 函式庫：共用函式庫
同時作為一個虛擬套件由這些套件填實： libc6-udeb
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- dep: libcommons-collections4-java
- Apache Commons Collections - Extended Collections API for Java
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- dep: libgcc1 (>= 1:3.0)
- GCC 支援函式庫
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- dep: libgetopt-java
- GNU getopt - Java port
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- dep: libgomp1 (>= 4.9)
- GCC OpenMP (GOMP) support library
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- dep: libhts2 (>= 1.0)
- C library for high-throughput sequencing data formats
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- dep: libjung-free-java
- Java Universal Network/Graph Framework
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- dep: libstdc++6 (>= 5.2)
- GNU Standard C++ Library v3
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- dep: libwww-perl
- simple and consistent interface to the world-wide web
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- dep: ncbi-blast+
- next generation suite of BLAST sequence search tools
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- dep: parafly
- parallel command processing using OpenMP
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- dep: perl
- Larry Wall's Practical Extraction and Report Language
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- dep: python3-numpy
- Fast array facility to the Python 3 language
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- dep: r-base-core
- GNU R core of statistical computation and graphics system
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- dep: r-bioc-qvalue
- GNU R package for Q-value estimation for FDR control
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- dep: r-cran-cluster
- GNU R package for cluster analysis by Rousseeuw et al
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- dep: rsem
- RNA-Seq by Expectation-Maximization
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- dep: salmon
- wicked-fast transcript quantification from RNA-seq data
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- dep: samtools
- processing sequence alignments in SAM, BAM and CRAM formats
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- dep: transdecoder
- find coding regions within RNA transcript sequences
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- dep: trimmomatic
- flexible read trimming tool for Illumina NGS data
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- dep: zlib1g (>= 1:1.1.4)
- 壓縮函式庫 - 跑程式時用(runtime)
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- rec: trinityrnaseq-examples
- RNA-Seq De novo Assembly common example and testing files
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- sug: collectl
- Utility to collect Linux performance data