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Thanks for creating this tool! The workflow is clear and easy to follow.
I've noticed some concerning variability when I set different random seeds. I understand from #53 that preProcSample randoml…
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I did some analysis of the latest association downloads file (2023-10-29) according to the following steps
1. Filtered for associations with no data in on CHR_ID column
2. Filtered on SNPS column f…
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Hello Developers,
I have run the MTBseq pipeline for my 6000 TB samples.
I noticed that some mutations are repeated in the same .tab file.
I don't understand why is it so,
So shall I consi…
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**HISAT2 DM** has a problem with advanced options re SNP annotation. Wrapper needs update? See: unrecognized arguments
> Fatal error: Exit code 2 ()
> usage: extract_snps.py [-h] [-v] [--testset] [ge…
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## 1. Bug description
The FRQ and BETA is flipped as expected, but A1 and A2 keeps original
### Console output
******::NOTE::******
- Formatted results will be saved to `tempdir()` by defa…
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### Please add Pramaan reports as well
### Please use a different seller apart from Sellersetu to check interoperability.
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## Flow 1
### On_search
- `categories.id` should be alphanu…
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Jira Link: [DB-1461](https://yugabyte.atlassian.net/browse/DB-1461)
Using YB 1.3.1.0 on macOS Mojave Version 10.14.6. Database created with plain `yb-ctl create` so RF =1, and one node.
I have a…
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An output of pipeline OmicABEL::reshuffle contains beta_SNP (which effect size of SNP) and se_SNP (which is standard error for beta_SNP).
I applied OmicABEL and GWFGLS for same data with same procedur…
Sodbo updated
8 years ago
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### Description of bug
We performed an hybrid assembly using metaspades (ONT + SR), we had really huge coverage. Nonetheless, one of the final we discovered that there were 5 minority SNPs that were …
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When I try to run mtcojo, the following error is reported, but when I check my data, there are no duplicates of SNPs, and I don't know what the reason is.
**Accepted options:
--mbfile test.txt
--…