The stairway plot is a method for inferring detailed population demographic history using the site frequency spectrum (SFS) from DNA sequence data.
☆74Apr 9, 2026Updated 3 months ago
Alternatives and similar repositories for stairway-plot-v2
Users that are interested in stairway-plot-v2 are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style …☆179Apr 17, 2026Updated 3 months ago
- 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
- A collection of tools useful for preparing or manipulating site-frequency spectrum (SFS) files☆21Mar 20, 2023Updated 3 years ago
- Joint inference of heterozygosity rates and runs of homozygosity☆23Dec 12, 2025Updated 7 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.
- HaploSweep is a method for detecting and categorizing soft and hard selective sweeps based on haplotype structure.☆11Sep 24, 2024Updated last year
- ☆13Sep 11, 2025Updated 10 months ago
- De novo construction of isoforms from long-read data☆38Jul 2, 2026Updated 3 weeks ago
- ☆70Dec 5, 2022Updated 3 years ago
- Scripts for analysis used during the course☆98Apr 30, 2024Updated 2 years ago
- Implementation of the multiple sequential markovian coalescent☆92Aug 5, 2025Updated 11 months ago
- Calculate Hybrid Index and Heterozygosity from SNP data☆17Sep 2, 2025Updated 10 months ago
- Pipeline for the identification of (coding) gene structures in draft genomes.☆38May 9, 2024Updated 2 years ago
- General tools for genomic analyses.☆393Mar 25, 2026Updated 4 months ago
- 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.
- Reconstruction of ancestral genome maps☆16Mar 29, 2018Updated 8 years ago
- Bayesian analysis of genomic sequence data under the multispecies coalescent model☆114Updated this week
- Genome-wide scan for balancing selection using beta statistic☆32Apr 26, 2023Updated 3 years ago
- Time-stratified f-statistics☆17Aug 1, 2025Updated 11 months ago
- Tools and Utilities for msmc and msmc2☆50Jan 23, 2026Updated 6 months ago
- R functions for generating site frequency spectra (SFS) from a VCF file.☆29Feb 13, 2020Updated 6 years ago
- A gap-closing software tool that uses long reads to enhance genome assembly.☆243Sep 6, 2024Updated last year
- Program for analysing NGS data.☆263Mar 6, 2025Updated last year
- T1K is a versatile methods to genotype highly polymorphic genes (e.g. KIR, HLA) with bulk or single-cell RNA-seq, WGS or WES data.☆107Jul 20, 2026Updated last week
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Software for painlessly estimating average nucleotide diversity within and between populations☆167Jul 20, 2026Updated last week
- Haplotype based scans for selection☆149Jun 5, 2026Updated last month
- Topology weighting from unphased genotypes of any ploidy☆29Jun 17, 2026Updated last month
- Statistical inference of recent positive selection using IBD segments☆14Apr 20, 2026Updated 3 months ago
- D Frequency Spectrum: Signatures of introgression across the allele frequency spectrum☆19Sep 19, 2020Updated 5 years ago
- Infer demographic history with the Moran model☆51Jun 14, 2025Updated last year
- GraffiTE is a pipeline that finds polymorphic transposable elements in genome assemblies and/or long reads, and genotypes the discovered …☆268Updated this week
- 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
- Detecting IBD within low coverage ancient DNA data. Development Repository for software package that contains code for manuscript.☆16Apr 22, 2026Updated 3 months ago
- 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.
- PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files☆209Jul 16, 2026Updated last week
- An efficient tool for cross-population fixation index estimation on variant call format files☆11Mar 1, 2026Updated 4 months ago
- Likelihood-based Selective Sweep Detection☆42Oct 12, 2023Updated 2 years ago
- Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis☆341Jul 7, 2023Updated 3 years ago
- Tools for F1 hybrid PSMC (hPSMC) divergence time inference from whole genomes☆15May 29, 2024Updated 2 years ago
- G-PhoCS is a software package for inferring ancestral population sizes, population divergence times, and migration rates from individual …☆34Apr 27, 2021Updated 5 years ago
- Tutorials on phylogenetic and phylogenomic inference☆402Apr 12, 2026Updated 3 months ago