nf-core / mcmicro

An end-to-end processing pipeline that transforms multi-channel whole-slide images into single-cell data.
https://nf-co.re/mcmicro
MIT License
4 stars 12 forks source link

Add MAPS as phenotyping module #43

Closed LukasHats closed 3 days ago

LukasHats commented 1 week ago

Description of feature Adding a phenotyping module for automated phenotyping using MAPS. In the first version, this module takes a user-pretrained model and the quantification table as input. The output will be the modified quantification table with an additional column for cell phenotypes.

An associated issue already exists in nf-core/modules to create it not only as a local module