bbimber
bbimber
Hello - this is a really useful action. We have some cases where we do not want the automatic changelog to be created. Is it possible to provide a parameter...
Hello, I ran cuteSV individually on samples, and then "SURVIVOR merge" on these. When I try to tabix sort the end product, I get this error: ``` + /home/exacloud/gscratch/prime-seq/bin/tabix -p...
Hello - we're interested in merging VCFs with SURVIVOR. I believe the answer is no, but want to confirm: does survivor support gzipped input or output? Thanks.
I am running GATK GenotypeGVCFs, v4.2.6.1. I am trying to call Genotypes on a GenomicsDB workspace with about 500 WGS samples. Note, this is the macaque MMul10 genome, so it...
Hello - we're trying to run Funcotator with a custom data source, where that source is a locatableXsv (i.e. simple tab-delimited file with columns for contig, start, and end). I...
This is a possible workaround for #7938. This isnt a finished PR, but I'm opening this to kick off tests.
Hello, We're trying to run GenotypeGVCFs on a large genomicsDB workspace. The command is below, with the output. We run these jobs scatter/gather, with each job getting a define, small...
Hello, When working with a large VCF, iterating all features to determine the total variant count is slow. Can Can HTSJDK use a VCF index to quickly count total records...
Hello, I dont know if the ancillary seurat repos are watched very well, so i want to make you aware of this issue and fix: https://github.com/mojaveazure/seurat-disk/pull/106 The gist is that...
Hello, We often export clone data based on frequency (i.e. clones >1%). Our input data are usually mRNA-seq, and we generally have variable levels of reads per locus. For example,...