althonos / pyfastaniLinks
Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
☆22Updated last month
Alternatives and similar repositories for pyfastani
Users that are interested in pyfastani are comparing it to the libraries listed below
Sorting:
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆26Updated last month
- snapper☆13Updated last year
- Computation of average nucleotide identity with the use of MMseqs2☆15Updated 9 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- Microbial agile accurate SNP Typer☆29Updated last year
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆30Updated 2 months ago
- Python implementation of barrnap (Bacterial ribosomal RNA predictor)☆22Updated 8 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆55Updated 5 months ago
- Prokaryotic Pangenome Analysis☆24Updated 3 years ago
- Automated strain separation of low-complexity metagenomes☆50Updated 3 years ago
- HyLight is a strain aware de novo assembly method based on the overlap-layout-consensus (OLC) paradigm that leverages the strengths of NG…☆12Updated last year
- Manipulate and generate figures for trees in Newick format☆22Updated 2 months ago
- Genomic sequence aligner☆31Updated 3 weeks ago
- Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)☆35Updated 3 months ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆25Updated last year
- BinaRena: Interactive Visualization and Binning of Metagenomic Contigs☆32Updated last year
- Fast implementation of KofamScan optimized for high-memory systems using PyHMMER☆14Updated last month
- Primer design from single genes to whole gene families for unlocking the tree of life☆16Updated 4 months ago
- ☆10Updated 4 months ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated last month
- software to identify primers that can distinguish genomes☆20Updated 8 months ago
- A k-mer-based maximum likelihood method for estimating distances of reads to genomes and phylogenetic placement.☆16Updated 3 weeks ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- ☆24Updated 8 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 7 years ago
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆27Updated last month
- A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads.☆16Updated 3 weeks ago
- VStrains is a de novo approach for reconstructing strains from viral quasispecies.☆23Updated 8 months ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆24Updated 2 years ago
- PanTax: Strain-level metagenomic profiling using pangenome graphs☆43Updated last month