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Refactor code and/or tests to pass test runs
1. bte-server
- [x] updated workflow config
- [ ] all checks passing
3. api-response-transform
- [x] updated workflow config
- [x] …
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Heya :) So I'm running version 112. I go through a few steps with the data so apologies for the long question :)
The original data is:
``#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT case.bam
c…
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This KEGG reaction should be retrieved, as far as I can tell, but we don't have relationships coming from GBA to anything but water (in robokopdb1). Could be a problem with the crawl or with the cli…
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Hello,
Looks like this one is not yet resolved but I cannot find any open ticket. See for example:
http://amigo.geneontology.org/amigo/gene_product/UniProtKB:T1ESS4
This gene has IBA annota…
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The way start positions are calculated causes issues when alleles span the boundaries of exons and the coding sequence itself.
For exon boundaries:
The error stems from `FuncotatorUtils::getStar…
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### Prefix
uniprot.mnemonic
### Name
UniProt
### Homepage
https://www.uniprot.org/
### Source Code Repository
_No response_
### Description
The UniProt Knowledgebase (UniProtKB) is a comprehe…
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Dangling edges found for STRING. See https://monarch-initiative.github.io/monarch-qc/ for the report; https://data.monarchinitiative.org/monarch-kg-dev/ for the data.
Find out why and suggest a re…
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Error running:
pyscenic grn \
--num_workers 20 \
--output adj.tsv \
--method grnboost2 \
PBMC10k_filtered.loom \
hs_hgnc_tfs.txt
```
(...)
distributed.worker - WARNING - Memory use is high …
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Hi,
After downloading cosmic v90 files `CellLinesCodingMuts.vcf CosmicCLP_MutantExport.tsv`,
errors:
```
$ perl prepare_annovar_user.pl -dbtype cosmic CosmicCLP_MutantExport.tsv -vcf CellLine…
xiucz updated
2 months ago
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**Describe the bug**
On the overview report page, the "Completeness" links are broken (i.e. "Completeness 30x" in the screenshot below):
![incomplete_genes_overview](https://github.com/user-atta…