./biology/subread, High-performance read alignment, quantification and mutation discovery

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Branch: CURRENT, Version: 2.0.8, Package name: subread-2.0.8, Maintainer: bacon

The Subread package comprises a suite of software programs for
processing next-gen sequencing read data including:

Subread: a general-purpose read aligner which can align both
genomic DNA-seq and RNA-seq reads. It can also be used to
discover genomic mutations including short indels and structural
variants.

Subjunc: a read aligner developed for aligning RNA-seq reads
and for the detection of exon-exon junctions. Gene fusion events
can be detected as well.

featureCounts: a software program developed for counting
reads to genomic features such as genes, exons, promoters and
genomic bins.

Sublong: a long-read aligner that is designed based on
seed-and-vote.

exactSNP: a SNP caller that discovers SNPs by testing signals
against local background noises.

Master sites:

Filesize: 25463.377 KB

Version history: (Expand)

CVS history: (Expand)


   2025-01-20 18:29:59 by Jason Bacon | Files touched by this commit (17) 
Log message:
biology/subread: Alignment, quantification, SNPs

The Subread package comprises a suite of software programs for
processing next-gen sequencing read data including:

    Subread: a general-purpose read aligner which can align both
    genomic DNA-seq and RNA-seq reads. It can also be used to
    discover genomic mutations including short indels and structural
    variants.

    Subjunc: a read aligner developed for aligning RNA-seq reads
    and for the detection of exon-exon junctions. Gene fusion events
    can be detected as well.

    featureCounts: a software program developed for counting
    reads to genomic features such as genes, exons, promoters and
    genomic bins.

    Sublong: a long-read aligner that is designed based on
    seed-and-vote.

    exactSNP: a SNP caller that discovers SNPs by testing signals
    against local background noises.