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

nf-core

Hello !
Have a question on WGS bioinformatic pipeline, to my knowledge there is no nf-core pipeline available for the read filtering / contig / genome binning specific to WGS. I have fungal WGS and was wondering what you were using. I plan on using funannotate next for annotation.

If your fungi are in the agri space, look for `pante` by Darcy Jones of the CCDM. It will give you a comprehensive assembly and annotation platform built on nextflow.

<https://github.com/fmobegi/pante|https://github.com/fmobegi/pante>
Here is a fork i created a long time ago..

And some assembly scripts here <https://github.com/JWDebler|https://github.com/JWDebler>