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c2997108

convert.sh does not produce a .hic file in the appropriate format for juicebox

I have created a tool to edit a contact map by directly reading SALSA output files (scaffolds_FINAL.agp, alignment_iteration_1.bed and assembly.cleaned.fasta). It only displays at the window size of the first...

I want to combine data using MakeCohortVcf after processing 500 samples multiple times in cohort mode

Thanks for your reply, mwalker174. Yes, as per your comment every 500 samples are merged and the output clean_vcf files are great. But I have 2000 samples and the README...

I want to combine data using MakeCohortVcf after processing 500 samples multiple times in cohort mode

I am looking forward to "Better documentation and a Terra workspace". I thought MergeBatchSites.wdl is not used in GATKSVPipelineBatch.wdl but it is needed when merging. I just want to ask...