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Add saving of the LOCI configurations to file, read back on ROM load.
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Hi,
Is it possible to Highlight the significant loci without specifying the rsIDs?
It's currently like a 2 step process:
-> plot to get the lead variants
-> then, re-run the plot specifying the le…
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What is the loci for this module?
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Hi, thanks for developing such a great tool! However, I ran into some problems with it when performing a large (kinda?) loop using `pbapply` to accelerate the process. I did add `gc()` and `rm()` func…
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I see that typically gtc2vcf does a fantastic job in infering the coordinates with the SourceSeq mapping workflow. However, I note that in some cases when SourceSeq maps to different loci equally well…
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Dear Treeshrink,
I have a loci.treefile with about 3800 gene trees. An issue arises due to gene trees with "too many taxa" when really, the genes are split in their alignment files due to poor seq…
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hi,
when i use the -a option it only types A,B,C,DQA1,DRB1. if i specify -a MICA for instance, i get the message "Input bam : A DOES NOT exist. Please check the bam exists." I know the MICA reads are…
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Hello, I ran "selscan --xpehh --vcf vcf1_Chr1.gz --vcf-ref vcf2_Chr2.gz --pmap --out outfile", but no files were generated.
The result of the operation is:
selscan v1.3.0
Opening vcf1_Chr1.gz...
L…
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I have called a bunch of samples with straglr and merged the (chrom, start, end, motif) beds into one unified bed. I would like to use this merged bed to genotype each sample again. Sometimes differen…
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I get the following error while running battenberg on my wgs bam files in R 4.1.0
Error in `$ cell_line_baf_logR -> $ $ $ $