Measuring Splicing Efficiency from Total RNA-Seq Data, implementing statitical methods from Khodor YL, et al., 2011
install.packages("devtools")
devtools::install_github("hilgers-lab/SpliceFlow")
- Genome Alignment bam files STAR
- Reference annotation in gtf format. Example file here
- Short read sequencing SJ.out files STAR. Example file in here. We recommend to pull SJ.out into a single SJ.out from many experiments and filter by min counts.
A step by step guide for data processing and identification of splicing efficiency in vignette.
library(SpliceFlow)
vignette("SpliceFlow")
Initial Release 0.1.0
Release date: Xth X 202X This release corresponds to the SpliceFlow version used by Alfonso-Gonzalez et al. 202X
Developer Carlos Alfonso-Gonzalez. For questions or feedback you can contact:
alfonso@ie-freiburg.mpg.de
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