Efficient calculation of phylogenetic distance matrices.
☆50Oct 8, 2024Updated last year
Alternatives and similar repositories for PhyloDM
Users that are interested in PhyloDM are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- MAPLE - a new approximate approach for maximum likelihood phylogenetics at short divergence.☆65Mar 15, 2026Updated 4 months ago
- CLI tool for querying the Genome Taxonomy Database (GTDB). Batch search, genome cards, taxon lineages, and cross-release taxonomic compar…☆31Updated this week
- Universal and efficient structure-based core gene phylogeny with Foldseek and ProstT5☆90Mar 12, 2026Updated 4 months ago
- Extracting paths from assembly graphs☆24Jun 22, 2026Updated last month
- Embedding-based indexing for compact storage and rapid querying of bacterial pan-genomes☆22Jul 11, 2026Updated 2 weeks ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Python package for detection of chimerism and contamination in prokaryotic genomes.☆93May 11, 2026Updated 2 months ago
- Repository containing a method for automatically identifying pathogen lineages from a phylogeny.☆17May 19, 2023Updated 3 years ago
- Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t☆12Feb 23, 2025Updated last year
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆259May 13, 2026Updated 2 months ago
- Pipeline detecting distant and putative novel insertion sequences in prokaryotic genomes☆13Jun 10, 2021Updated 5 years ago
- Rust package for constructing and analyzing phylogenies. (unpolished & unmaintained)☆15May 1, 2025Updated last year
- An ultrafast and memory efficient tool for phylogenomics☆26Apr 17, 2026Updated 3 months ago
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories☆40Feb 20, 2026Updated 5 months ago
- A Nextflow pipeline for running synteny analysis.☆20Jun 25, 2026Updated last month
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Prediction of microbial interactions in complex communities☆14Aug 14, 2024Updated last year
- Strain-level haplotyping for metagenomes with short or long-reads.☆69Apr 10, 2025Updated last year
- genome_updater is a bash script that downloads and updates (non-redundant) snapshots of the NCBI Genomes repository (RefSeq/GenBank) with…☆173Jul 6, 2026Updated 3 weeks ago
- Metabolic scanning and annotation of Metagenomes☆10Dec 18, 2025Updated 7 months ago
- Raspir, the rare species identifier☆11Oct 19, 2023Updated 2 years ago
- Approximate nearest neighbour search for microbial genomes based on hash metric☆66Jun 10, 2026Updated last month
- A plant organellar Graphical Fragment Assembly toolkit☆16Sep 10, 2025Updated 10 months ago
- String algorithm visualizations☆14Feb 7, 2023Updated 3 years ago
- PHYLIP package starting with version 4.0a☆20Updated this week
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads☆66Jan 22, 2026Updated 6 months ago
- A hybrid assembly and MAG recovery pipeline (and more!)☆110Updated this week
- gia: Genomic Interval Arithmetic☆67Aug 21, 2024Updated last year
- Python and Rust library for loading, saving, and manipulating taxonomic trees☆54Jun 22, 2026Updated last month
- kmer based feature extraction tool for bioinformatics, metagenomics, AI/ML and more☆47Jul 12, 2026Updated 2 weeks ago
- Parallel/Homoplasic SNP Finder☆20May 3, 2023Updated 3 years ago
- Fast, scalable, accurate and accessible Bayesian phylogenetics☆46Updated this week
- Manipulate and generate figures for trees in Newick format☆22Jul 31, 2025Updated 11 months ago
- Metagenomic Binning Algorithm☆54Jan 16, 2026Updated 6 months ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Compute a pairwise SNP distance matrix from one or two alignment(s)☆26Sep 12, 2024Updated last year
- De novo genome assembly for long reads using an overlap graph☆22Jul 3, 2026Updated 3 weeks ago
- Unix table column and row manipulation using column names☆12Jun 17, 2026Updated last month
- Make phylogenetic trees and lineages from the NCBI Taxonomy database☆14Mar 19, 2023Updated 3 years ago
- ☆56May 5, 2025Updated last year
- ☆20Jan 13, 2026Updated 6 months ago
- HyLight is a strain aware de novo assembly method based on the overlap-layout-consensus (OLC) paradigm that leverages the strengths of NG…☆12Sep 18, 2024Updated last year