nf-PhyloTree

Generate IBS-based, bootstrapped phylogenetic trees

Dependencies

To run the pipeline, you need to have installed:

1. Graphlan
2. Python 2.7 with the packages colormap, xml and biopython
3. plink v1.90
4. R with tidyverse
5. phylip

Running the pipeline

The pipeline can be run as a regular nextflow workflow:

nextflow run --infile $PWD/mybedfile --ftype bed --spp cow --outfolder $PWD/ibstree --bootstrap 100