
Sample information for example BAM files included in the
<code>SGSeq</code> package.


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

SGSeq

Splice event prediction and quantification from RNA-seq data

si function

<code>data.frame</code> with columns &#147;sample_name&#148;,
&#147;file_bam&#148;, &#147;paired_end&#148;, &#147;read_length&#148;,
&#147;frag_length&#148; and &#147;lib_size&#148;.

si: Example sample information

Description

Arguments

Format