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Sorry for causing more headaches...!
**Describe the bug**
VV doesn't really support NG variants, and if it sort of works, it shows some redundant validation warnings when processing NG variants. I…
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Hi,
Very recently biomaRt started giving an unknown error. The code below has been functional for a very long time. None of the mirrors seem to be different either. Unless the server is having an …
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I am analyzing mouse data, but I am having trouble finding a ligand-receptor database equivalent to CellPhoneDB for mice. Do you have any suggestions on how best to proceed? I am hoping someone might …
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Hi,
I am using TCGAbiolinks and get BioMart error while running GDCprepare command. I reinstalled TCGAbiolinks and BioMart but got same error. My commands and session info are below. How can I solve …
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A test with a container built using `singularity build` from the Docker images on `quay.io` using Singularity 2.5.2.
```
$ singularity exec /tools/containers/sra-tools-2.9.1_1--h470a237_0.simg pin…
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After three hours of running the test pipeline, output hangs at
````
[fa/fd89fd] process > preproc:prep_ref:wget [ 0%] 0 of 1
[- ] process > preproc:prep_ref:mmi -
[05…
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https://github.com/obophenotype/human-phenotype-ontology/releases/tag/v2022-04-14
We should update out database someday soon!
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I am using the Docker Container of VEP and trying to use that for annotation of a liftover database. I have a small input file with 4 entries, which I didn't yet manage to get annotated.
So now I am …
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I encountered sporadic issues connecting to the Ensembl database. This may have been unlucky (mirrors were responding poorly over 48 hours?). I changed the code from...
# Line 363:
tryCatch({
…
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We earlier discussed the compatibility function #7 , which was focused on my original idea of the flag system. We've moved away from that approach to a more verbose return result. We've also moved to…