Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
☆336Jul 7, 2023Updated 2 years ago
Alternatives and similar repositories for vcf2phylip
Users that are interested in vcf2phylip are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- General tools for genomic analyses.☆390Mar 25, 2026Updated last month
- Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species☆186Dec 19, 2024Updated last year
- Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style …☆173Apr 17, 2026Updated 3 weeks ago
- PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files☆206Aug 15, 2024Updated last year
- Code to compute the XP-CLR statistic to infer natural selection☆106Jun 13, 2022Updated 3 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Software for painlessly estimating average nucleotide diversity within and between populations☆161Apr 4, 2026Updated last month
- SMC++ infers population history from whole-genome sequence data.☆173Jan 20, 2024Updated 2 years ago
- An accurate GFF3/GTF lift over pipeline☆535Aug 1, 2023Updated 2 years ago
- A pipeline to generate a phylogenetic tree from huge SNP data☆93Dec 30, 2023Updated 2 years ago
- Tool to plot synteny and structural rearrangements between genomes☆346Apr 7, 2025Updated last year
- Synteny and Rearrangement Identifier☆463Mar 17, 2026Updated last month
- Tools for fast and flexible genome assembly scaffolding and improvement☆564Feb 14, 2024Updated 2 years ago
- Python library to facilitate genome assembly, annotation, and comparative genomics☆903May 2, 2026Updated last week
- VCF2Dis: A new simple and efficient software to calculate p-distance matrix and construct population phylogeny based Variant Call Forma…☆105Aug 27, 2025Updated 8 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- A genome completeness evaluation tool based on miniprot☆239Sep 18, 2025Updated 7 months ago
- VCF2Dis: an ultra-fast and efficient tool to calculate pairwise genetic distance and construct population phylogeny from VCF files☆55Aug 27, 2025Updated 8 months ago
- Haplotype based scans for selection☆146Apr 30, 2026Updated last week
- k-mer based assembly evaluation☆343Jun 28, 2024Updated last year
- Extensive de-novo TE Annotator☆443Apr 5, 2026Updated last month
- Tutorials on phylogenetic and phylogenomic inference☆397Apr 12, 2026Updated 3 weeks ago
- Fast genome analysis from unassembled short reads☆320Apr 8, 2024Updated 2 years ago
- The stairway plot is a method for inferring detailed population demographic history using the site frequency spectrum (SFS) from DNA sequ…☆68Apr 9, 2026Updated last month
- Hybridization detection using phylogenetic invariants☆52Oct 29, 2024Updated last year
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification☆170Oct 29, 2025Updated 6 months ago
- Accurate Species TRee ALgorithm☆278Apr 1, 2024Updated 2 years ago
- Generate an interactive dot plot from mummer or minimap alignments☆215Jan 17, 2024Updated 2 years ago
- Accurate Species Tree EstimatoR: a family of optimation algorithms for species tree inference (including ASTRAL & CASTER)☆243Apr 30, 2026Updated last week
- Organelle Genome Assembly Toolkit (Chloroplast/Mitocondrial/ITS)☆380Feb 13, 2025Updated last year
- RAxML Next Generation: faster, easier-to-use and more flexible☆463Apr 29, 2026Updated last week
- Version 5 of the CAFE phylogenetics software☆166Mar 16, 2026Updated last month
- Graph realignment tools for structural variants☆167Dec 8, 2022Updated 3 years ago
- Jasmine: SV Merging Across Samples☆251Dec 20, 2024Updated last year
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- D Frequency Spectrum: Signatures of introgression across the allele frequency spectrum☆19Sep 19, 2020Updated 5 years ago
- A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.☆210Nov 18, 2022Updated 3 years ago
- An R package to analyse and visualise admixture proportions from STRUCTURE, fastSTRUCTURE, TESS, ADMIXTURE etc.☆151Dec 22, 2025Updated 4 months ago
- Scripts to analyze data using TreeMix. This pipeline runs TreeMix with bootstrapping, helps choose number of migration events and creates…☆47Mar 7, 2024Updated 2 years ago
- Converts a VCF file to a FASTA alignment provided a reference genome and a GFF file☆55Dec 15, 2025Updated 4 months ago
- TEsorter: an accurate and fast method to classify LTR-retrotransposons in plant genomes☆108Nov 17, 2025Updated 5 months ago
- Chromosome-level scaffolding using multiple references☆166Sep 8, 2024Updated last year