BRANCHSNV
github.com/rhyswhite/branchsnvBRANCHSNV reports strict clade-exclusive nucleotide markers separately from single-nucleotide substitutions reconstructed on a selected edge of a rooted phylogenetic tree, while retaining ambiguity across equally parsimonious ancestral-state reconstructions.
Sourced from
- bio.tools — branchsnv
- GitHub — github.com/rhyswhite/branchsnv
Related resources
Freely available tools for biological computing in Python, with included cookbook, packaging and thorough documentation. Part of the [Open Bioinformatics Foundation](http://open-bio.org/). Contains the very useful [Entrez](https://biopython.org/DIST/docs/api/Bio.Entrez-module.html) package for API access to the NCBI databases.
Exact, validated excision of coordinate-defined genomic regions from transposed NEXUS matrices.
Offline tool for cleaning tables of human gene and protein identifiers (TXT, CSV, TSV, XLSX). It maps approved symbols, aliases, previous symbols, Ensembl gene, UniProt, Entrez, RefSeq and HGNC identifiers to current HGNC approved symbols with cross-references, using a bundled HGNC snapshot. Excel date-corrupted symbols are recovered where the original is unambiguous and flagged for manual review otherwise; no input row is dropped. Each run records the tool version and HGNC release and writes a per-row audit table.
Automate downloading and querying the latest (or a given) version of ChEMBL.