ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
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Dec 13, 2024 - Rust
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average-nucleotide-identity
Here are 17 public repositories matching this topic...
Application and Python module for average nucleotide identity analyses of microbes.
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Oct 16, 2024 - Python
Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.
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Jul 14, 2024 - Rust
Fast and accurate tool for calculating Average Nucleotide Identity (ANI) and clustering virus genomes and metagenomes
clustering viruses taxonomic-classification dereplication average-nucleotide-identity sequence-similarity genome-sequence bacteriophages
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Dec 20, 2024 - Python
Approximate nearest neighbour search for microbial genomes based on hash metric
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Dec 21, 2024 - Rust
skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes to select representatives for comparative genomics and metagenomics.
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Dec 20, 2024 - Python
PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
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Dec 6, 2024 - Rust
Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
bioinformatics taxonomy python-library python-bindings metagenomes cython-library ani average-nucleotide-identity
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Dec 5, 2024 - Cython
In silico taxonomic classification of Bacillus cereus group genomes using whole-genome sequencing data
taxonomy mlst virulence-factor average-nucleotide-identity multi-locus-sequence-typing bacillus bacillus-cereus
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May 8, 2024 - Python
A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.
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Dec 12, 2024 - Python
Bacterial taxonomy construction and evaluation in R
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Jan 30, 2024 - R
skandiver is a program for identifying mobile genetic elements (prophages, plasmids, transposases, etc.) from assembled whole genome sequences using average nucleotide identity (ANI)
bioinformatics metagenomics average-nucleotide-identity mobile-genetic-elements whole-genome-assembly
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May 29, 2024 - Python
Rapid, in silico characterization of Bacillus cereus group isolates using WGS data
mlst average-nucleotide-identity virulence-gene antimicrobial-resistance-genes multi-locus-sequence-typing bacterial-genomes bacillus
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Sep 29, 2022
Script for creating a tANI distance matrix for use in phylogenetic reconstruction.
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Apr 16, 2024 - Perl
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
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Jun 14, 2021 - R
Fast and accurate tool for calculating Average Nucleotide Identity (ANI) among virus and bacteria genomes
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Nov 25, 2024 - C++
Python module that provide an alternative view of the outputs produced by the software pyani
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Jan 29, 2020 - Python
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