DiffSplice: The genome-wide detection of differential splicing events with RNA-seq. RNA sequencing is providing an unprecedented visability into genome-wide expression at the transcription level. DiffSplice is a novel tool for discovering and quantitating alternative splicing variants present in an RNA-seq dataset, without relying on annotated transcriptome or pre-determined splice pattern. For two groups of samples, DiffSplice further utilizes a non-parametric permutation test to identify significant differences in expression at both gene level and transcription level. DiffSplice takes as input the SAM files that supply the alignment of the RNA-seq reads on the reference genome, obtained from an RNA-seq aligner like MapSplice. The results of DiffSplice are summarized as a decomposition of the genome and can be visualized using the UCSC genome browser.
Keywords for this software
References in zbMATH (referenced in 1 article )
Showing result 1 of 1.
- Ruddy, Sean; Johnson, Marla; Purdom, Elizabeth: Shrinkage of dispersion parameters in the binomial family, with application to differential exon skipping (2016)