Hi,
I want to try the THOR for paired end ChIP-seq data. However, I could not find any mention about setup for analysis for paired end reads. Does it make sense, to set the --exts parameter to 0 for all bam files to tell the software that only what is aligned should be considered?
Are there any other potential considerations / issues to be aware of?
Thanks
Best
Marek
Hi,
I want to try the THOR for paired end ChIP-seq data. However, I could not find any mention about setup for analysis for paired end reads. Does it make sense, to set the
--extsparameter to0for allbamfiles to tell the software that only what is aligned should be considered?Are there any other potential considerations / issues to be aware of?
Thanks
Best
Marek