Nima Mousavi

Thank you for your suggestion, we can add this to our next release!

GangSTR uses coverage in order to estimate the length of large repeat expansions. If the coverage is relatively uniform in a region around the locus of interest, GangSTR should be...

It is ok if the reads not all reads cover the entire repeat region, what matters is that if there if the coverage is relatively constant in a larger region...

Hi @Owuorgpo Unfortunately --ploidy 1 is relatively under-tested and issues are prevalent in both GangSTR and TRTools. Is it perhaps possible to share the VCF/BAM files that were used in...

Hi @Owuorgpo, Sorry for very delayed response. My plate has been quite full with an internship that I recently started. Unfortunately I won't be able to debug this immediately. I...

Hello, It seems like GangSTR is rejecting all of the reads that are picked up from that region. Can you try changing the parameters for local realignment to see if...

Humm I'm not sure what the issue may be. GangSTR has been mostly used/tested on paired-end PCR free WGS datasets. I haven't worked with data generated from CRISPR-based cut site,...

I'll add this to our future work, but we probably won't get to it in the next release.