Question: is it possible to use paired-end RNA-seq data?

refresh-bio / SPLASH

GNU General Public License v3.0

71 stars 9 forks source link

Question: is it possible to use paired-end RNA-seq data? #13

Open tomsing1 opened 11 months ago

tomsing1 commented 11 months ago

Context: I have paired-end RNA-seq data from a stranded library preparation protocol. I would like to identify differential splicing events between two groups (including cryptic exons). Is it possible / useful to use both the R1 and R2 reads in the analysis? Many thanks for making SPLASH available - and congratulations on the Cell paper!

roozbehdn commented 9 months ago

Hi Thomas, Sorry for our late response. Yes, you can run SPLASH on R1 fastq files and it should work for detecting differential splicing between two groups.