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I am trying to demultiplex tumor samples using genotype data from healthy cells, and demuxlet is calling the majority of my tumor cells doublets. I'm looking for any insight about whether somatic muta…
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I'm using this script:
```
#!/bin/bash
# Parameters to replace:
# The GOOGLE_CLOUD_PROJECT is the project that contains your BigQuery dataset.
GOOGLE_CLOUD_PROJECT=psjh-eacri-data
INPUT_PATTER…
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**Snakemake version**
5.15
**Describe the bug**
I'm able to trigger a bug with an undefined variable.
**Logs**
```
Traceback (most recent call last):
File "/fast/projects/medgen_resea…
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I ran mosdepth twice on the same WES samples and got different coverage values. I used the same exome intervals bed file and reference genome build (hg38). There version of mosdepth used was different…
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Hello,
I would like to run ieCAT, but is unclear, where to get GRCh38 exome external controls (.EC files), without liftover; With liftover there is risk to loose a lot of variants
Should I try to …
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Could you throw some light on this error
bpipe.PipelineError: Error evaluating script '~/ximmer/eval/pipeline/config.groovy': No such property: HGFA for class: ~/ximmer/eval/pipeline/config.groovy
…
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* toil_cnacs version: toil_cnacs 0.2.0
* Python version:2.7
* Operating System: Linux
### Description
Installed successfully using pip.
generate_pool is raising exception as in the subject l…
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Hello,
I would like to ask what would be the recommended cval number for WES data with 40x coverage when using facets-suite? I come across this post (https://github.com/taylor-lab/facets-suite/wiki…
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The latest Gnomad version is now 4.0.0
We are running version 2.1 for exomes and genomes, and 3.1 for mitochondria.
[Link to Gnomad download page](https://gnomad.broadinstitute.org/)
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Good Afternoon,
I have the following line in my VCF file:
##INFO=
despite this what I see when I use db_info on a database created with vcf2db is:
variant_impacts gnomad_exome_all …