Collection of Python scripts for parsing/analyses of RAD-seq data
☆24Mar 5, 2025Updated 11 months ago
Alternatives and similar repositories for radseq
Users that are interested in radseq are comparing it to the libraries listed below
Sorting:
- RADseq Data Exploration, Manipulation and Visualization using R☆60Sep 4, 2025Updated 5 months ago
- Genetic Algorithm for Demographic Model Analysis☆54Feb 3, 2026Updated 3 weeks ago
- D Frequency Spectrum: Signatures of introgression across the allele frequency spectrum☆19Sep 19, 2020Updated 5 years ago
- A package for population structure inference from RAD-seq data☆34May 14, 2021Updated 4 years ago
- Scripts to handle NGS data and other biological data☆22Jan 24, 2024Updated 2 years ago
- Biodiversity Genomics Academy 2023: Understanding k-mers and ploidy using Smudgeplot☆11Sep 12, 2023Updated 2 years ago
- Repository for speciation genomics website☆27Aug 30, 2025Updated 6 months ago
- Assembly and analysis of RADseq data sets☆27Aug 22, 2016Updated 9 years ago
- Assessing confidence in introgression among four populations☆28Apr 19, 2021Updated 4 years ago
- A framework for simulation-based inference in evolutionary biology☆28Jan 13, 2026Updated last month
- package for interacting with the chromosome counts database (CCDB) at https://taux.evolseq.net/CCDB_web/☆13Jul 28, 2025Updated 7 months ago
- ☆13Dec 3, 2024Updated last year
- Long read to rMATS☆32May 5, 2023Updated 2 years ago
- Simple and flexible manipulation of genomic data.☆16Apr 16, 2025Updated 10 months ago
- Scripts to do interesting things with phylogenetic trees and spatial data☆15May 23, 2018Updated 7 years ago
- Simulation package for getting gene tree distributions and loci / SNPs from input tree topologies and migration / Ne scenarios. Wraps aro…☆14Apr 20, 2024Updated last year
- An R function to compute Concordance Factors from SNP datasets☆15Dec 4, 2025Updated 2 months ago
- Scripts for analysis used during the course☆95Apr 30, 2024Updated last year
- An R package for predicting ploidal level from sequence data using site-based heterozygosity☆18Feb 19, 2026Updated last week
- Presentations from the course☆39Aug 28, 2023Updated 2 years ago
- Population Assignment using Genetic, Non-genetic or Integrated Data in a Machine-learning Framework. Methods in Ecology and Evolution.…☆16Sep 12, 2025Updated 5 months ago
- Modification of BayesAss 3.0.4 to allow handling of large SNP datasets☆17Feb 19, 2022Updated 4 years ago
- Topology weighting from unphased genotypes of any ploidy☆22Dec 16, 2025Updated 2 months ago
- Random scripts, mostly for dealing with RADseq data and DNA sequence alignments☆18Oct 2, 2025Updated 4 months ago
- Code for multi-sample variant calling from sequence data of pooled or unpooled DNA samples☆20Oct 9, 2024Updated last year
- Population assignment analysis using R☆15Jul 4, 2025Updated 7 months ago
- Whole-genome bioinformatic pipeline for pooled or individual-based NGS data using bash and R☆21Mar 5, 2022Updated 3 years ago
- microhaplotype visualizer and analyzer☆20Jun 24, 2021Updated 4 years ago
- Code for computing various support scores for internodes☆19Apr 7, 2020Updated 5 years ago
- Gene-tree Reconciliation Algorithm with MUL-trees for Polyploid Analysis☆17Jul 25, 2025Updated 7 months ago
- A tool to calculate ploidy levels from genotype likelihoods and coverage using Hidden Markov Models☆18Nov 29, 2022Updated 3 years ago
- Infer demographic history with the Moran model☆51Jun 14, 2025Updated 8 months ago
- diveRsity: A comprehensive, general purpose population genetics analysis package.☆26Feb 16, 2018Updated 8 years ago
- ☆23Jan 11, 2019Updated 7 years ago
- Genotype Calling with Uncertainty from Sequencing Data in Polyploids 🍌🍓🥔🍠🥝☆32Mar 8, 2025Updated 11 months ago
- RADseq workflow using STACKS☆61Updated this week
- The SPrime program identifies variants that are introgressed from archaic populations.☆27May 21, 2022Updated 3 years ago
- Hagfish - assess an assembly through creative use of coverage plots☆36Aug 9, 2012Updated 13 years ago
- LDna: an R package to perform linkage disequilibrium network analysis☆31Apr 12, 2024Updated last year