sgvc_ann_from_bam


Splice variant counts and frequencies for FBXO31.
Splice variants are based on UCSC knownGene annotation.
Counts were obtained from BAM files.


internal

SGSeq is a software package for analyzing splice events from
RNA-seq data. Input data are sequence reads mapped to a reference
genome in BAM format. Genes are represented as a genome-wide
splice graph, which can be obtained from existing annotation or
can be predicted from the data. 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 package includes functions for splice event prediction,
quantification, visualization and interpretation.

Leonard Goldstein

sgvc_ann_from_bam: Example splice variant counts (annotated) from BAM files

Description

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