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Hi all,
I'm using my data to calculate allele counts according to tutorial [(momi tutorial).](https://momi2.readthedocs.io/en/latest/tutorial.html)
I prepared my data for this analyses using Plink …
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### Description
BCF import error
- This is happening in: prod/staging/both
- This requires a hotfix to production: yes/no
### Steps to replicate
- Import BCF (Internal link: https://a…
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Hi!
I've been trying to use demuxlet to demultiplex a mixture of cells from two donors as a test run. I have 10x data which was processed with CellRanger version 2.1.1, and the summary stats I'm ge…
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Now that the IO code of hyperspy has been split, it may worth considering re-licensing the code with a more permissive license in RosettaSciIO.
I don't a strong view on this topic, but I start this d…
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I've recently rewritten our pipeline for build 38, but haven't collected into nf/snakemake yet. I only post this here because some pieces may be relevant, e.g. the pitfalls from slivar for not annotat…
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Hi Aron,
As we have all our genomic fasta gziped for using with bwa, I was wondering if bedtools getfasta can work with gzipped data.
Pablo.
pamag updated
3 months ago
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Hello,
It seems like hap.py does not properly handle phased variants that overlap with non-phased variants.
Here is an example:
```
chr20 55234351 . A T 500 PASS AC=1;AF=0.5;AN=2;DA=39;DP=78…
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I have SR and LR on the same genomes. Previously, I used the following pipelines on the
SR: bowtie2 -> picard -> GATK
LR: minimap2 -> clair3 -> GATK (to round up the gvcfs)
and got reasonable …
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Hello,
When working with a large VCF, iterating all features to determine the total variant count is slow. Can Can HTSJDK use a VCF index to quickly count total records in a VCF?
Thanks
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There seems to be error when using `indircall` or `indirbr` flags
Samples
[KittyMemory.zip](https://github.com/KpwnZ/sllvm-obfuscator/files/9819391/KittyMemory.zip)
```
C:\Users\Administrator\…