NBISweden / GenErodeView external linksLinks
GitHub repository for GenErode, a Snakemake workflow for the analysis of whole-genome sequencing data from historical and modern samples to study patterns of genome erosion.
☆29Feb 4, 2026Updated last week
Alternatives and similar repositories for GenErode
Users that are interested in GenErode are comparing it to the libraries listed below
Sorting:
- Bacterial typing pipeline for clinical NGS data. Written in NextFlow, Python & Bash.☆12Feb 6, 2026Updated last week
- ☆12Jun 12, 2023Updated 2 years ago
- Tools for F1 hybrid PSMC (hPSMC) divergence time inference from whole genomes☆14May 29, 2024Updated last year
- A pipeline for Bacterial Whole genome sequence data analysis☆16Jul 24, 2022Updated 3 years ago
- R Port of psmc☆17Mar 16, 2023Updated 2 years ago
- A tool for estimating time-dependent migration rates based on cross-/within-population coalescent rates from MSMC☆16Apr 6, 2025Updated 10 months ago
- Scripts used to perform analyses in Rice et al. (2023)☆16Dec 28, 2023Updated 2 years ago
- Code for assembly approach presented in "Haplotype-resolved assembly of a tetraploid potato genome using long reads and low-depth offspri…☆14Nov 20, 2023Updated 2 years ago
- ☆17Oct 21, 2024Updated last year
- ☆10May 14, 2025Updated 9 months ago
- GONE: Scripts, programs and an example data set☆51Jul 20, 2025Updated 6 months ago
- An ultra-fast gzip file tools☆27Apr 25, 2024Updated last year
- Scripts to convert between file formats for various analyses☆16May 10, 2025Updated 9 months ago
- Sequence-independent identification and removal of adapters/systemic contamination in shotgun sequencing data. https://doi.org/10.1093/bi…☆18Apr 4, 2023Updated 2 years ago
- ☆36Nov 30, 2023Updated 2 years ago
- Scripts and notes on how to analyse ancient DNA genotype data to understand population structure☆43Jul 27, 2023Updated 2 years ago
- ☆21Jan 11, 2024Updated 2 years ago
- An efficient tool for cross-population fixation index estimation on variant call format files☆11Jan 12, 2024Updated 2 years ago
- GERP++ code from Sidow Lab modified by Kevin Thornton to compile properly.☆25Sep 19, 2016Updated 9 years ago
- ☆14Oct 27, 2025Updated 3 months ago
- SYNPHONI is a tool designed for reconstructing the dynamic evolution of syntenic relationships across all scales of phylogenetic distance…☆12May 7, 2023Updated 2 years ago
- Scripts in R for Landscape Genomics Analyses v.2☆10Feb 17, 2023Updated 2 years ago
- PhyloForge: Unifying micro and macro evolution with comprehensive genomic signals☆10May 17, 2024Updated last year
- detectRuns: a R Package for Runs of Homozygosity and Runs of Heterozygosity☆12May 25, 2023Updated 2 years ago
- genome annotation (RNAseq and TE) pipeline (draft)☆13Aug 26, 2025Updated 5 months ago
- Calculates the probability of a haplotype given a population reference panel☆12Dec 9, 2024Updated last year
- Recombination Landscape Estimation using Recurrent Neural Networks☆66Nov 30, 2025Updated 2 months ago
- A pipeline to investigate horizontal gene transfer from NGS data☆26Nov 20, 2025Updated 2 months ago
- Linear-time de novo Long Read Assembler☆41Oct 22, 2025Updated 3 months ago
- A set of workflows written in Nextflow for Genome Annotation.☆46Jan 28, 2026Updated 2 weeks ago
- Full GATK SNP calling pipeline☆23Oct 30, 2025Updated 3 months ago
- ContScout sequence contamination filter tool☆26Dec 28, 2025Updated last month
- Tree reconstruction of ancestry using incomplete lineage sorting☆11Jan 9, 2026Updated last month
- BOSTIn is a new, user-friendly phylogenetic artifact identification package.☆11Jan 20, 2026Updated 3 weeks ago
- Estimating gene family turnover rates by likelihood-based methods☆12Aug 17, 2020Updated 5 years ago
- MetaPORE – Chiu Laboratory, University of California, San Francisco☆12Nov 4, 2015Updated 10 years ago
- GeneMiner: a tool for extracting phylogenetic markers from next-generation sequencing data☆12Feb 22, 2024Updated last year
- Tutorial for using MCMCTree as implemented by Brown Lab at SIUC. For divergence time estimation on UCE datasets, for dendrobatid frogs.☆10Jun 19, 2020Updated 5 years ago
- Set of scripts to manupulate tab-delimited genotype calls files as well as to convert calls-files to other popular formats.☆10Jan 11, 2021Updated 5 years ago