Software for painlessly estimating average nucleotide diversity within and between populations
☆167Jul 20, 2026Updated 3 weeks ago
Alternatives and similar repositories for pixy
Users that are interested in pixy are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species☆192Dec 19, 2024Updated last year
- SMC++ infers population history from whole-genome sequence data.☆177Jan 20, 2024Updated 2 years ago
- General tools for genomic analyses.☆394Mar 25, 2026Updated 4 months ago
- Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style …☆181Apr 17, 2026Updated 3 months ago
- Automated and Distributed Population Genetic Model Inference from Allele Frequency Spectra☆18Mar 31, 2026Updated 4 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.
- A package for population structure inference from RAD-seq data☆36May 14, 2021Updated 5 years ago
- Genome-wide scan for balancing selection using beta statistic☆32Apr 26, 2023Updated 3 years ago
- Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis☆341Jul 7, 2023Updated 3 years ago
- WinPCA. A package for windowed principal component analysis.☆54Jun 9, 2026Updated 2 months ago
- Program for analysing NGS data.☆263Mar 6, 2025Updated last year
- ☆13Sep 11, 2025Updated 11 months ago
- Topology weighting by iterative sampling of sub-trees☆89Jan 5, 2025Updated last year
- ☆16Jun 14, 2017Updated 9 years ago
- An accessible and flexible tool for fitting demographic models with dadi using custom or published models (available here), conducting go…☆67Apr 25, 2024Updated 2 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Estimate recombination rates from population genetic data☆71Jun 10, 2020Updated 6 years ago
- Assessing confidence in introgression among four populations☆29Apr 19, 2021Updated 5 years ago
- Performing highly efficient genome scans for local adaptation with R package pcadapt v4☆45Jul 25, 2025Updated last year
- Simple tool for capturing alignment regions with sufficient quality for genotyping.☆23Aug 20, 2021Updated 4 years ago
- Likelihood-based Selective Sweep Detection☆42Oct 12, 2023Updated 2 years ago
- PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files☆210Jul 16, 2026Updated 3 weeks ago
- Inference of ploidy and heterozygosity structure using whole genome sequencing data☆298May 28, 2026Updated 2 months ago
- Scripts for analysis used during the course☆98Apr 30, 2024Updated 2 years ago
- Infer demographic history with the Moran model☆52Jun 14, 2025Updated last year
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- R Package to Estimate Variable Recombination Rates using Population Genetic Data☆44Nov 13, 2019Updated 6 years ago
- Analyze and simulate Pool-Seq time series data☆18Jun 16, 2022Updated 4 years ago
- RAiSD: software to detect positive selection based on multiple signatures of a selective sweep and SNP vectors☆43Nov 15, 2023Updated 2 years ago
- The stairway plot is a method for inferring detailed population demographic history using the site frequency spectrum (SFS) from DNA sequ…☆74Apr 9, 2026Updated 4 months ago
- Integrate multiple genome assemblies into a pangenome graph☆37Jun 9, 2022Updated 4 years ago
- feature-based deep learning for the identification of selective sweeps☆59Mar 31, 2026Updated 4 months ago
- ☆16Jan 6, 2022Updated 4 years ago
- GONE: Scripts, programs and an example data set☆57May 12, 2026Updated 2 months ago
- A multiscale pangenome browser☆30Jul 18, 2026Updated 3 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.
- Tools and Utilities for msmc and msmc2☆50Jan 23, 2026Updated 6 months ago
- Snakemake workflow for highly parallel variant calling designed for ease-of-use in non-model organisms.☆95Jul 29, 2026Updated last week
- genotype dimensionality reduction with a VAE☆50Mar 11, 2025Updated last year
- VCF-kit: Assorted utilities for the variant call format☆136May 22, 2026Updated 2 months ago
- Recombination Landscape Estimation using Recurrent Neural Networks☆70Mar 27, 2026Updated 4 months ago
- Tutorials on phylogenetic and phylogenomic inference☆402Apr 12, 2026Updated 3 months ago
- Pangenome-based genome inference☆177Updated this week