Python module that provide an alternative view of the outputs produced by the software pyani
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Updated
Jan 29, 2020 - Python
Python module that provide an alternative view of the outputs produced by the software pyani
A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.
R Code to reproduce results in the Nature Communication paper: Murray, C.S., Gao, Y. & Wu, M. Re-evaluating the evidence for a universal genetic boundary among microbial species. Nat Commun 12, 4059 (2021). https://doi.org/10.1038/s41467-021-24128-2
Rapid, in silico characterization of Bacillus cereus group isolates using WGS data
PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
Bacterial taxonomy construction and evaluation in R
Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.
Application and Python module for average nucleotide identity analyses of microbes.
Script for creating a tANI distance matrix for use in phylogenetic reconstruction.
skandiver is a program for identifying mobile genetic elements (prophages, plasmids, transposases, etc.) from assembled whole genome sequences using average nucleotide identity (ANI)
ultrafast genome querying and taxonomic profiling for metagenomic samples by abundance-corrected minhash.
In silico taxonomic classification of Bacillus cereus group genomes using whole-genome sequencing data
Approximate nearest neighbour search for microbial genomes based on hash metric
skDER: efficient & high-resolution dereplication of microbial genomes to select representatives for comparative genomics and metagenomics.
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