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Hello,
Thank you for developing one of the few tools that computes strain abundance, this has been very helpful!
Is there any way to force the script, more specifically `StrainFLAIR.sh query` to…
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Check what other crates are available and do the sniffing for additional formats. Some examples:
https://stackoverflow.com/questions/19120676/how-to-detect-type-of-compression-used-on-the-file-if-no-…
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Hello,
I've a problem with groopM. When I tried to create the database with the command:
groopm parse db.gm contigs.fa *.bam
I get the following error:
![groopmerror2](https://cloud.githubuserconten…
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### Subject of the issue
Output filenames containing the string ".bcf" anywhere in the filename result in BCF output when VCF output is desired. For example, if one has filenames containing an md5 of…
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I am using Signac 1.8.0 in last two days, I am getting an error when running Rscript with Signac commands. Commands include CoveragePlot, LinkPeaks, and more.
The commands:
`
.libPaths('/share/a…
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Hi again,
with singularity problem solved, now another error linked to htslib using provided test data:
```
...
15:02:16.826 INFO ProgressMeter - NC_000962.3:4233097 0.0 …
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command
using docker `docker run --rm -it -v /mnt/e/E:/EEE hkubal/clair3:latest bash`
`/opt/bin/run_clair3.sh --bam_fn=/data/41195.minimap2.bam --ref_fn=/data/Homo_sapiens_assembly38.fasta.…
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Hi,
fastq looks good - but I'm wondering if there's a way to iterate multiple fastqs together when each of them may or may not be compressed? My current attempt basically involves munging the sourc…
wwood updated
2 years ago
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@Shnatsel I'm moving performance tracking for `crabz` related things to here.
Run the same benchmarks as found here: https://github.com/zlib-ng/pigzbench with the different backends.
The `zlib-n…
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Would make it very clear what type of file is being dealth with. Additionally, can avoid issues with things like vim being able to read bgziped files saved with .gz extensions and resaving them as re…