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### Source Name
Database of Genotypes and Phenotypes (dbGaP)
### Source URL
https://www.ncbi.nlm.nih.gov/gap/
### Source Description
The database of Genotypes and Phenotypes (dbGaP) was developed…
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Hello,
I am trying to run hisatgenotype. I installed both hisat2/2.2.1 and hisatgenotype. Here's my exact command:
```
python3 /cluster/home/user/hisatgenotype/hisatgenotype --base hla --locus-li…
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### System information
- Ubuntu 22.04
- 1.0.5
- Cloud
### Description of the Issue
The `format` command with `--generate-metadata` crashes for a filename that doesn't contain `GCST`, even if the …
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Hello @jzieve
I see some of the genotypes have empty ALT allele. This could be simply missing calls. But instead of using `.` or `N`, the field is simply empty. In other records I do see the ALT be…
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Confirm that the user uploaded genotype files are valid before starting each analysis
- Confirm that their are no duplicate sample IDs
- If there are, list the IDs to the user, and add the option to…
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review
These terms indicate a change from a (good) glutamate to a bad (proline) nitrogen source but that is difficult to parse from the terms. Also it is difficult to understand that the cells are…
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Good day.I
![cannot open controllerData_b dat](https://github.com/user-atta…
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### Contact Details
chiwonchung98@gmail.com
### What happened?
I've been tinkering with this pipeline for a few days but I cannot get it to work. I'm fairly new to Snakemake so I'm not exactly sure…
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Curate test data sets on AWS, preferably on S3 open data, this may include, germline, tumor/normal, genotype, RNASeq data.
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Create an ingest for ZDB-FISH genotypes to ZP phenotypes
This ingest hasn't been created yet, so it will need to be started with:
```
cruft create https://github.com/monarch-initiative/cookiec…