bioconda / packages / bioconductor-sgseq 1.22.0

Splice event prediction and quantification from RNA-seq data

Installers

Info: This package contains files in non-standard labels.

conda install

  • linux-64  v1.14.0
  • osx-64  v1.14.0
  • noarch  v1.22.0
To install this package with conda run one of the following:
conda install -c bioconda bioconductor-sgseq
conda install -c bioconda/label/gcc7 bioconductor-sgseq
conda install -c bioconda/label/cf201901 bioconductor-sgseq

Description

SGSeq is a software package for analyzing splice events from RNA-seq data. Input data are RNA-seq reads mapped to a reference genome in BAM format. Genes are represented as a splice graph, which can be obtained from existing annotation or predicted from the mapped sequence reads. Splice events are identified from the graph and are quantified locally using structurally compatible reads at the start or end of each splice variant. The software includes functions for splice event prediction, quantification, visualization and interpretation.

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