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James Willson's Projects

blending-checker icon blending-checker

Checks whether a newick tree is contains blending with reference to newick constraint trees.

disco icon disco

Decomposition Into Single-COpy gene trees (DISCO) is a method for decomposing multi-copy gene-family trees while attempting to preserve orthologs and discard paralogs.

gdl-tag-decomposition icon gdl-tag-decomposition

Python script for decomposing multi-copy trees in newick format using various methods based of tagging.

max-clade icon max-clade

Python script that extracts maximal clades from a list of unrooted trees.

merlin-p icon merlin-p

A prior-based integrative framework for functional transcriptional regulatory network inference (Fotuhi Siahpirani & Roy, Nucleic Acids Research 2017)

stride icon stride

STRIDE: Species Tree Root Inference from Gene Duplication Events

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