Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
☆120Aug 21, 2023Updated 2 years ago
Alternatives and similar repositories for SNPGenie
Users that are interested in SNPGenie are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Evolutionary Bioinformatics Toolkit (EBT)☆11Jul 14, 2020Updated 6 years ago
- Finds SNP sites from a multi-FASTA alignment file☆278Dec 16, 2020Updated 5 years ago
- Tool for analysing viral diversity from High Throughput Sequencing☆12Nov 20, 2025Updated 8 months ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Feb 15, 2019Updated 7 years ago
- Program for estimating dN/dS in overlapping genes (OLGs)☆14Dec 2, 2022Updated 3 years ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- Pairwise SNP distance matrix from a FASTA sequence alignment☆156Dec 31, 2025Updated 6 months ago
- SMC++ infers population history from whole-genome sequence data.☆177Jan 20, 2024Updated 2 years ago
- Pan-genome wide association studies☆220May 29, 2024Updated 2 years ago
- LoFreq Star: Sensitive variant calling from sequencing data☆113Oct 16, 2025Updated 9 months ago
- ☆26Aug 10, 2021Updated 4 years ago
- [mu]tation [s]pectrum [h]istory [i]nference☆27Jan 9, 2025Updated last year
- Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis☆341Jul 7, 2023Updated 3 years ago
- RAxML Next Generation: faster, easier-to-use and more flexible☆473Jul 6, 2026Updated 3 weeks ago
- Haplotype based scans for selection☆149Jun 5, 2026Updated last month
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- MeGAMerge (A tool to merge assembled contigs, long reads from metagenomic sequencing runs)☆14Dec 7, 2016Updated 9 years ago
- Quantifying Introgression via Branch Lengths☆58Sep 30, 2022Updated 3 years ago
- An R package to estimate the timing of selection for a beneficial allele.☆14Dec 2, 2021Updated 4 years ago
- MITE Tracker: An accurate approach to identify miniature inverted-repeat transposable elements in large genomes☆20Mar 21, 2024Updated 2 years ago
- ☆25Feb 24, 2026Updated 5 months ago
- Code to compute the XP-CLR statistic to infer natural selection☆107Jun 13, 2022Updated 4 years ago
- HyPhy standalone analyses☆55Jan 5, 2026Updated 6 months ago
- A whole-genome and alignment-free prokaryotic phylogeny tool☆23May 26, 2026Updated 2 months ago
- Repository for the Data challenge about Software and Statistical Methods for Population Genetics (SSMPG 2017)☆14Sep 19, 2017Updated 8 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Programs to analyse NGS data for population genetics purposes☆181Aug 27, 2024Updated last year
- SaffronTree: Reference free rapid phylogenetic tree construction from raw read data☆25Jun 11, 2020Updated 6 years ago
- VCF-kit: Assorted utilities for the variant call format☆137May 22, 2026Updated 2 months ago
- Utilities for analyzing next generation sequencing data.☆16May 7, 2021Updated 5 years ago
- Pipeline to take VCF through to Selection Analysis.☆59Dec 11, 2022Updated 3 years ago
- Location of structural errors in a genome assembly and structural variations between a pair of genomes☆11Sep 27, 2019Updated 6 years ago
- R Package to Estimate Variable Recombination Rates using Population Genetic Data☆44Nov 13, 2019Updated 6 years ago
- RelocaTE2☆19Oct 6, 2023Updated 2 years ago
- SINE annotation tool for plant genomes☆19Jan 21, 2024Updated 2 years ago
- 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.
- Extensive de-novo TE Annotator☆464Jul 16, 2026Updated last week
- a versatile toolkit for processing and analyzing diverse types of sequence data☆23May 19, 2026Updated 2 months ago
- Tools for haplotype-wise reconstruction of pseudomolecules☆23Sep 5, 2025Updated 10 months ago
- Fast genome analysis from unassembled short reads☆324Apr 8, 2024Updated 2 years ago
- Calculate dN/dS ratio precisely (Ka/Ks) using a codon-by-codon counting method.☆26Apr 30, 2018Updated 8 years ago
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins☆221Aug 27, 2025Updated 11 months ago
- predicting DFE and alpha from polymorphism data☆29Oct 4, 2018Updated 7 years ago