Pangenome Outputs - Githubissues

salvadorlab / mbovpan

Mbovpan is a nextflow bioinformatic pipeline for Mycobacterium bovis pangenome analysis. The goal of Mbovpan is to help researchers to study the M. bovis pangenome in an automatic and easy way.

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Pangenome Outputs #2

Closed noahaus closed 2 years ago

noahaus commented 2 years ago

When using "pan" mode, we need to have general outputs that non-bioinformaticians can use quickly.

Pangenome Curve
core genome phylogeny
Co-occurrence/Dissociation network

noahaus commented 2 years ago

Make pangenome curve script general for mbovpan. Added command to make a core genome alignment. No incorporation of co-occurence networks - to much.

noahaus commented 2 years ago

This is how it will look for the pangenome curve - will spend today adding the script to the pipeline.

noahaus commented 2 years ago

Putting here so I don't forget - add errorStrategy = "ignore" to pan_curve process.