blex-max

Documentation?

4

Hello, thanks for maintaining Staden/io_lib! I'm trying to batch convert old v2 SCFs to v3, which I believe I can achieve with this library, but I can't find any documentation...

[Feature Request] -i/-e flags to accept file containing expression

3

Hello, thanks for maintaining bcftools! Would it be possible to allow the -i/-e flags to accept a text file containing the expression to perform inclusion/exclusion by? I'm aware that this...

[feature request] Further options to control trimming with consensus

5

Would it be possible to implement a trim option to take a set number of bases after an initial trim threshold? e.g. for a sequence: ACTGATCTACTAGATCCC -q 5 -'crop' 10...

Singularity unexpectedly appears to look outside containers for CMD path

2

**Version of Singularity** singularity-ce version 3.10.2-bionic singularity version 3.5.3-bionic **Describe the bug** I've been experiencing odd behaviour with singularity - it doesn't appear to actually do things within my containers....

Hello, Thanks for your work maintaining this API! When trying to use the kill_jobs.py example from this repo, I encounter the following error. Any suggestions on what I should do?...

Status of repository?

4

Hello, What is the status of this repo? I am refactoring some code for my lab written in R that we would like to transpose into python. The code to...

Perhaps as an extra column to the dataframe. Happy to do a quick PR if not, but I wouldn't want to duplicate effort :) Thanks!

can't test pipeline which uses relative paths in samplesheet (and runs fine with nextflow run)

2

I have a pipeline using nf-core structure which has some old e2e tests that I’m charged with converting to the nf-test format. The samplesheet input for each contains relative paths...

Thanks for this excellent project! I've got in editor chatting with Claude working in helix, but what I'm hoping to do is chat with it about my entire project i.e....

Hello, Thanks for your work on wgbstools! While working on the codebase, I noticed that the pyproject.toml locks to python > 3.12. I don't believe this is commented upon in...