CGRL-QB3-UCBerkeley / PopGenTools
SNP/Genotype calling based on ANGSD && downstream analyses
☆9Updated 10 years ago
Alternatives and similar repositories for PopGenTools:
Users that are interested in PopGenTools are comparing it to the libraries listed below
- Deleterious mutation prediction pipeline☆13Updated last month
- The MafFilter genome alignment processor☆17Updated 4 months ago
- ABLE - Approximate Blockwise Likelihood Estimation☆17Updated 6 years ago
- a tool to identify species and inter-species hybrids and chromosome copy number variants from short-read data☆17Updated 5 years ago
- Scripts for reformatting data. Mainly from tab separated to an esoteric program specific format☆13Updated last week
- ☆24Updated 7 years ago
- Analyze and simulate Pool-Seq time series data☆15Updated 2 years ago
- Distinguishing among modes of convergent adaptation using population genomic data: statistical inference method, extensions, and examples☆13Updated 5 years ago
- TEFLoN uses paired-end illumina sequence data to discover and genotype transposable elements present in your samples.☆13Updated 3 years ago
- Likelihood-based Selective Sweep Detection☆37Updated last year
- Population genetics analyses from NGS data☆25Updated 3 years ago
- Tools to convert to and from vcf format☆14Updated 7 years ago
- Sex assignment through coverage☆17Updated 10 months ago
- Simple pipeline to go from an alignment to a neutral model, using the PHAST toolkit☆11Updated 5 years ago
- Utilities for analyzing next generation sequencing data☆17Updated 6 years ago
- A box of genomics tools☆21Updated 4 years ago
- R package for comparing mixture solutions to similarity data, with a focus STRUCTURE like models to ChromoPainter palettes☆23Updated 5 years ago
- Software package for estimating fine-scale recombination rate.☆13Updated 3 years ago
- ☆12Updated 5 years ago
- A pipeline for scaffolding a genome assembly using Hi-C☆12Updated 2 years ago
- ☆12Updated 4 years ago
- Gene model transfer from closely related reference genomes using cDNA alignments☆10Updated 4 years ago
- Scripts used to perform analyses in Rice et al. (2023)☆15Updated last year
- Script to help assessing the evolutionary history of a TE family☆15Updated 5 years ago
- ☆15Updated 2 years ago
- D Frequency Spectrum: Signatures of introgression across the allele frequency spectrum☆16Updated 4 years ago
- assembly evaluation tool☆34Updated 2 years ago
- ☆13Updated last year
- A tool to calculate ploidy levels from genotype likelihoods and coverage using Hidden Markov Models☆17Updated 2 years ago
- Scripts and resources for the haploblocks manuscript☆15Updated 4 years ago