Woody Lin
Hi @mohamedbahru , While it is late, I can take a look if you share the error messages. It's most likely due to the names in groups.txt and groupb.txt files....
@TJiangBio , Sorry about the late reply. The missing file issue could be due to that Docker wasn't able to mount your working directory correctly. If you are not using...
Hi @TJiangBio , Sorry for the late reply. Please note that `groupa.txt` file should have `one line per file name` instead of '\t'. It may solve your problem. Thanks, Woody
Hi @TJiangBio , Let me know if you still have problems using PSI-Sigma. Thanks, Woody
@Sanat-Mishra , Sorry that you are experiencing the issue in different versions. I don't recall that `version 2.1` and `version 2.3` would have a difference in reporting IR events. Are...
@Sanat-Mishra , If the files are identical, I am not sure why the output files would be different. Did you try using ‘version 2.1” to reproduce the results in 2023?...
@Sanat-Mishra , That is interesting. Do you mean that there are almost 100k IR events missing in the ‘sorted.txt’? Best, Woody
@Sanat-Mishra , Is this inconsistency issue important to your research? 100k sounds a lot. Let me know if I can help further. I can find time to check the codes....
@Sanat-Mishra , Sure, sounds good to me. Best, Woody
Hi @happypiggyzjx , 1. `PSIsigma.db` is the database created by using `.gtf` and `.SJ.out.tab` files. It documents all possible splicing events. `PSIsigma_r10_ir3.txt` reports only the splicing events whose sequencing coverage...