althonos / pyfastaniLinks
Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
☆24Updated 3 months ago
Alternatives and similar repositories for pyfastani
Users that are interested in pyfastani are comparing it to the libraries listed below
Sorting:
- Microbial agile accurate SNP Typer☆30Updated 2 years ago
- snapper☆13Updated last year
- Computation of average nucleotide identity with the use of MMseqs2☆15Updated last year
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆34Updated 6 months ago
- Automated strain separation of low-complexity metagenomes☆52Updated 4 years ago
- ☆14Updated last week
- BinaRena: Interactive Visualization and Binning of Metagenomic Contigs☆33Updated last year
- Genomic sequence aligner☆33Updated 3 months ago
- A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads.☆18Updated last month
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆41Updated last year
- Prokaryotic Pangenome Analysis☆24Updated 4 years ago
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆27Updated 2 months ago
- Python implementation of barrnap (Bacterial ribosomal RNA predictor)☆24Updated last year
- Strain-level haplotyping for metagenomes with short or long-reads.☆63Updated 10 months ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆24Updated 3 years ago
- Python package to plot a phylogenetic tree on an existing matplotlib axis.☆27Updated 6 months ago
- VStrains is a de novo approach for reconstructing strains from viral quasispecies.☆23Updated last year
- software to identify primers that can distinguish genomes☆20Updated 2 weeks ago
- Non-redundant pangenome assemblies from multiple genomes or bins☆15Updated 8 months ago
- Fast implementation of KofamScan optimized for high-memory systems using PyHMMER☆17Updated 3 weeks ago
- ViromeQC is a computational tool to benchmark and quantify non-viral contamination in VLP-enrihed viromes. ViromeQC provides an enrichmen…☆20Updated 3 years ago
- A k-mer-based maximum likelihood method for estimating distances of reads to genomes and phylogenetic placement.☆18Updated this week
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 3 years ago
- A novel method for sequence similarity estimation☆28Updated last year
- Pathway Tools multiprocessing wrapper (for PathoLogic).☆15Updated last month
- Meteor is a plateform for quantitative metagenomics profiling of complex ecosystems. Meteor relies on genes catalogue to perform species-…☆35Updated last month
- Fast and space-efficient taxonomic classification of long reads☆43Updated 5 months ago
- ☆25Updated last year
- Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)☆36Updated last month
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Updated 3 years ago