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Hello,
I'm trying to think of a way that I can use this tool to detect variants that occur more frequently in one group than another. For example, suppose I have 50 samples sequenced to 20X coverag…
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https://github.com/ga4gh/vmc/issues/11#issue-237162358
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Hi. There is a problem with the medaka workflow.
If I remove barcode71 (a really bad sample), the pipeline finish. If I keep it, the pipeline krasches. It seems like longshot with the -A flag does no…
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Hello, I've run the somatic workflow in Strelka2 version 2.9.2 on a tumour-only-calling assay. But I get the error: "Requested indel error rates for sample index 1 when only 1 samples are defined", "F…
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The 22.05 release testing team is running a set of GTN tutorials on usegalaxy.org running Galaxy 22.05. This issue is to keep track of issues that arise running the tutorials.
**Galaxy 101**
- `H…
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Below we consider new names for what to date we have been calling 'Sequence-Level Variation' vs 'Post-Sequence Variation', and for what to date we have been calling 'Precise Variation' vs 'Bucket Vari…
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When I submitted a mutation:
NM_001164277:c.925_928delinsTC
to Transvar
with these options:
Reverse annotation cDNA, GRCh37, RefSeq
I got "p.G309Sfs*3" and "chr11:g.118896734_118896737d…
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I am summarizing my experince with digital normalization in reference based RNAseq analysis and possible future directions. I went through 3 use cases:
1. Diginorm for a group of samples in one experi…
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**Heterozygous genotype with two non-reference alleles**
As [proposed by @nh13 over in another issue](https://github.com/varlociraptor/varlociraptor/issues/153#issuecomment-830391640), this would b…
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When I set "anno=True", the manhattan plot was created succssfully. However, I only changed the anno to "GENENAME", the error occured:
Traceback (most recent call last):
File "/home/shulab/.local/…