The stairway plot is a method for inferring detailed population demographic history using the site frequency spectrum (SFS) from DNA sequence data.
☆70Apr 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:
- A collection of tools useful for preparing or manipulating site-frequency spectrum (SFS) files☆21Mar 20, 2023Updated 3 years ago
- Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style …☆175Apr 17, 2026Updated 2 months ago
- 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 9 months ago
- Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species☆191Dec 19, 2024Updated last year
- 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.
- SMC++ infers population history from whole-genome sequence data.☆177Jan 20, 2024Updated 2 years ago
- Time-stratified f-statistics☆17Aug 1, 2025Updated 11 months ago
- Genome-wide scan for balancing selection using beta statistic☆32Apr 26, 2023Updated 3 years ago
- Scripts for analysis used during the course☆97Apr 30, 2024Updated 2 years ago
- Bayesian analysis of genomic sequence data under the multispecies coalescent model☆113Jun 23, 2026Updated 2 weeks ago
- Haplotype based scans for selection☆149Jun 5, 2026Updated last month
- Implementation of the multiple sequential markovian coalescent☆92Aug 5, 2025Updated 11 months ago
- Tools and Utilities for msmc and msmc2☆50Jan 23, 2026Updated 5 months ago
- Software for painlessly estimating average nucleotide diversity within and between populations☆163Jun 30, 2026Updated last week
- 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.
- Likelihood-based Selective Sweep Detection☆42Oct 12, 2023Updated 2 years ago
- An efficient tool for cross-population fixation index estimation on variant call format files☆11Mar 1, 2026Updated 4 months ago
- General tools for genomic analyses.☆391Mar 25, 2026Updated 3 months ago
- Tools for F1 hybrid PSMC (hPSMC) divergence time inference from whole genomes☆15May 29, 2024Updated 2 years ago
- Program for analysing NGS data.☆262Mar 6, 2025Updated last year
- R functions for generating site frequency spectra (SFS) from a VCF file.☆29Feb 13, 2020Updated 6 years ago
- Reconstruction of ancestral genome maps☆16Mar 29, 2018Updated 8 years ago
- RegCloser is a genome gap-closing tool based on the robust regression approach, which is conceptually applicable to de novo assembly of N…☆15Apr 22, 2024Updated 2 years ago
- ☆70Dec 5, 2022Updated 3 years 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.
- PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files☆208Aug 15, 2024Updated last year
- Resources for phage genomics and annotation☆11Oct 27, 2025Updated 8 months ago
- chloroplast genome assembly using long reads data☆17Jul 8, 2025Updated last year
- Joint inference of heterozygosity rates and runs of homozygosity☆22Dec 12, 2025Updated 6 months ago
- ☆15Oct 24, 2025Updated 8 months ago
- Genotyping lots of samples with big pangenomes☆11Oct 30, 2025Updated 8 months ago
- Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis☆337Jul 7, 2023Updated 3 years ago
- MP-EST estimates species trees from a set of gene trees by maximizing a pseudo-likelihood function☆13Oct 31, 2025Updated 8 months ago
- Program for estimating dN/dS in overlapping genes (OLGs)☆14Dec 2, 2022Updated 3 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Machuruku☆32Jan 20, 2025Updated last year
- feature-based deep learning for the identification of selective sweeps☆59Mar 31, 2026Updated 3 months ago
- Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads☆86May 27, 2026Updated last month
- ☆35Nov 11, 2025Updated 7 months ago
- Leroy & Rougemont - “learning-by-doing” introduction to population genomics - scripts☆21Oct 2, 2019Updated 6 years ago
- A gap-closing software tool that uses long reads to enhance genome assembly.☆243Sep 6, 2024Updated last year
- Regenotyping structural variants through an accurate and efficient force-calling method☆26Apr 17, 2026Updated 2 months ago