Rahul Kumar
Rahul Kumar
I am analysing wgs data of 21 cell lines, I don't think so none of them have any inter-chromosomal translocation. Moreover I ran Manta and observed inter-cchr translocations. Is there...
Just to add, one of my cell line is common with CCLE database and they reported inter-chromosomal translocation using svaba itself. It means, I am missing something in my command...
I think its because I used "-I" in my command line which is suppressing the inter-chr lookup, I am trying without "-I" now.
Now, I have the inter-chr translocations after removing the "-I" from the command line. I have another question, I observed that in all the inter-chr translocations, number of spanning reads...
Thanks @jayendrashinde91 for your prompt reply, I read the methods in paper. Actually, that's exactly my question is i.e. around 1000 mutations were attributed to signature SBS84 in sample X...
Thanks Eric!!
Thanks Erik, so you did all the steps with this version or just HiCCUPSDiff? I ran HiCCUPSDiff with this version on .hic file created with another version and it failed....
Thanks Erik for the script, you're lucky that it worked for me. For me v1.19.02 is unable to read my .hic files created by v.2.20.00 May be I need to...
I successfully generated .hic file using 1.19.02 and then ran Arrowhead and hiccups on the same .hic file but didn't get loops/contacts and getting below error. Data not available for...