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The current example analysis has the processing steps of OPS separate from the evaluation steps. For example, in [sbs_1](https://github.com/cheeseman-lab/OpticalPooledScreens/tree/main/example_analysi…
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Based on #1641. Provide a table with the two columns:
* GlyTouCan ID
* Resource name (e.g. glyconnect, embl)
* if possible the protein and aa the glycan is reported on
for all cases of _glycan_…
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Mean correlation calculation fails if one coverage file returns `nan` for correlation.
leads to pipeline crash since mean correlation will not writen to CNV file and TsvToQC fails:
`Exception: Inp…
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**Software Versions**
$ snakemake --version
8.23.0
$ mamba list | grep "snakemake-executor-plugin-slurm"
$ conda list | grep "snakemake-executor-plugin-slurm"
snakemake-executor-plugin-slur…
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Hi,
Thanks for the invaluable tools and tutorial resources you provided!
I am currently working with imputed data from the UK Biobank, and I have encountered a challenge regarding the storage si…
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Hi
I am running some whole genome analysis but I am getting the attached error
using mutect2 and sequenza
run this
`fit
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### Description
`sct_analyze_lesion` fails when generating QC if the lesion mask is empty.
For some context, I run `sct_analyze_lesion` in a pipeline on lesion masks segmented by SCIseg (code [h…
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Placeholder ticket with some notes:
```
Seqr-Sample-QC
Sequencing metrics
if it's exome and external
Platform Level Computation
For exome samples
coverage stats, figure out which pl…
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I was trying to QC the 200K UKB WES data using the preprocessing with QC pipeline and I am finding the final genotypes.h5 file to have no genotypes at all (the file size was 8Mb). I did some digging a…