A community effort to collect a curated set of analysis pipelines built using Nextflow.

nf-core

Hello, is it possible to run raredisease pipeline with alignment files instead of fastq?

I have read more and I see that there is no such option.. I feel like there should be an option to skip alignment for the people who likes to try and compare different tools and etc.

Hello! Yes, currently the pipeline does not take alignment files as input. But it is high on our priority list for new features, and we are hoping to add it soon :slightly_smiling_face:

Hello <@U01T3NSK7TJ>, I feel like it should not be complicated :slightly_smiling_face: We might use this pipeline for some analysis now and I need to start from alignment. If that is the case, I might try to have hand-on the issue?

Absolutely! Feel free to take a shot at this issue, and let me know if you have any questions :slightly_smiling_face: