I am working to identify alternative splicing events in human and mouse breast cancer cell lines. I have been using your exon usage ratio dataset recently (CCLE_RNAseq_ExonUsageRatio_20180929) and was wondering where I could find the source code for this (supposedly available upon request) so that we can expand our analysis to the cell line derivatives and mouse cell lines. I will certainly cite the source in any works using your code.
Or, more broadly, I was wondering if anyone knew of algorithms that did individual exon quantification? Any guidance is appreciated.
Thank you so much!