tcfinder

A lightweight tool to find clusters of samples within a phylogeny.

This command-line tool finds clusters of tips from a list of identifiers within a phylogeny in tabular phylo4 format (see phylobase), regarding a minimum cluster size and a minimum proportion of targets in the cluster.

Info

Members (researchers): Miguel Álvarez Herrera

Research Groups: PathoGenOmics

Contact Email: pathogenomic@uv.es

Tool Repository: https://github.com/PathoGenOmics-Lab/tcfinder

Documentation: https://github.com/PathoGenOmics-Lab/tcfinder/blob/main/README.md

Publications DOI: https://doi.org/10.1093/ve/veaf015

Institution: Instituto de Biología Integrativa de Sistemas (I2SYSBIO)

Application domain:

Phylogenetic Analysis

Technical details
Type of application
  • Conda package
  • Package for compiling the executable program
Software compatibility
  • Linux
  • Mac
  • Windows
Hardware requirements
  • No specific hardware requirements
Programming language
  • Rust
Type of containerization
  • Conda
Wrapper type
  • None
Input file formats
  • csv
Output file formats
  • csv
Compatibility with other tools
  • phylobase