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TIL that `snakemake` now has features "tool wrappers" which allows popular command line tools to be used more simply with `snakemake` workflows: https://snakemake.readthedocs.io/en/stable/tutorial/add…
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Hallo again,
This something new:
```bash
DNA-mapping -i /mnt/Z/Shared\ folder/Shared\ data/DNA/NGS_AP06_apouikli_A006200409/ -o /mnt/Z/Shared\ folder/Shared\ data/DNA/NGS_AP06_apouikli_A006200409/b…
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We're thinking through where we are running taco, what workflows it submits, and where those workflows run.
Starting with the documentation's first page, installation, we give instructions for inst…
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writing example: https://github.com/snakemake-workflows/rna-seq-star-deseq2/blob/master/config/samples.tsv
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I've just been reviewing recent changes in ncov-ingest while investigating #471
I noticed that every rule now has gotten 2 new lines `benchmark: "benchmarks/rulename.txt"`. I'm all for benchmarkin…
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Write a script to follow the instructions [here](https://github.com/open-energy-transition/solver-benchmark/blob/main/benchmarks/pypsa/README.md) and automatically generate the LP files ready for benc…
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Do you guys have any plans to add an annotation pipeline to the transcriptome (like through Trinotate). I am struggling with that portion of the analysis and really like the snakemake workflows you g…
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Hi Johannes,
I am trying to implement the https://github.com/snakemake-workflows/dna-seq-gatk-variant-calling workflow for non-vertebrate (plant) genomes that are available through ensemblgenomes.or…
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**Snakemake version**
8.1.1
**Describe the bug**
As described in #1989, snakemake dependencies don't have version constraints configured, so they get the latest versions available. Is the [main…
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I am looking to use Varlociraptor to call SVs using candidates from several upstream callers (Delly, GRIDSS, Manta). Is there a recipe for how to configure Varlociraptor to do this?
Specifically, I…