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Hi, I would like to know how STAR usually handles highly variably gene sequences like V(D)J sequences that code for parts of the TCR / BCR (T-cell and B-cell receptors), please?
I guess it depends …
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Hello, I am trying to create a model of Macaca Mulatta (mmul) using MetaDraft. I have the `.faa` file for mmul, along with a Homo Sapien `.gbff` file and an SBML file (Recon3D from the BiGG database).…
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I get the following error when building kraken2 database:
`rsync: link_stat "/all/GCF/037/914/965/GCF_037914965.1_ASM3791496v1/GCF_037914965.1_ASM3791496v1_genomic.fna.gz" (in genomes) failed: No suc…
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### Is there an existing issue for this?
- [X] I have searched existing issues, it hasn't been reported yet
### Use case description
wanted to deploy google cloud function [2nd generation](https://…
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This is my script:
`haystac sample \
--fastq-r1 "/data1/user/zhaozh/2.PIG/1.screen/10.CSSS_230928/rawdata/X101SC23023451-Z01-J242/01.RawData/SS16/SS16_1.fq.gz" \
--fastq-r2 "/data1/…
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Would it be possible to implement an option/flag in pLM-BLAST to return the pre-screening scores without performing the subsequent time-consuming alignments?
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Note: #602 was also for this test, but it was closed more than 10 days ago. So, I didn't mark it flaky.
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commit: d88841db90d7d390eefb0de02b736b41f6adddde
buildURL: [Build Status](https://source.…
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I was updating kaptive to version 3.0.0b1, and noticed that this version doesn't appear to work with these gbk files anymore.
What I ran:
```
wget -q https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/…
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I tried to run snippy with the following genbank file:
https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/008/632/635/GCF_008632635.1_ASM863263v1/GCF_008632635.1_ASM863263v1_genomic.gbff.gz
However, the p…
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Some discussion required on details of course, but the particular use case I have in mind right now is in the gcf calculation.
In this thread: https://github.com/iqtree/iqtree2/discussions/248
@…