speciationgenomics / scripts
Scripts for analysis used during the course
☆81Updated 6 months ago
Related projects ⓘ
Alternatives and complementary repositories for scripts
- Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style …☆136Updated 3 months ago
- ☆76Updated 3 years ago
- Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species☆162Updated last week
- An accessible and flexible tool for fitting demographic models with dadi using custom or published models (available here), conducting go…☆62Updated 6 months ago
- Code to compute the XP-CLR statistic to infer natural selection☆90Updated 2 years ago
- Reference-free profiling of polyploid genomes☆105Updated 4 months ago
- Topology weighting by iterative sampling of sub-trees☆73Updated 2 years ago
- Few scripts facilitating the extraction of info from Repeat Masker .out files☆78Updated 3 years ago
- A new simple and efficient software to PCA and Cluster For popolation VCF File☆61Updated 6 months ago
- ☆70Updated 4 months ago
- SMC++ infers population history from whole-genome sequence data.☆152Updated 10 months ago
- Multi-level visualization of genomic statistical variables on rectangular chromosomes☆81Updated 4 months ago
- VCF2Dis: A new simple and efficient software to calculate p-distance matrix and construct population phylogeny based Variant Call Forma…☆81Updated last month
- RADseq workflow using STACKS☆56Updated this week
- A set of functions to visualise genotypes based on a VCF☆84Updated 2 years ago
- Software for painlessly estimating average nucleotide diversity within and between populations☆119Updated 5 months ago
- Tutorials on phylogenetic and phylogenomic inference☆38Updated 6 months ago
- Version 5 of the CAFE phylogenetics software☆114Updated this week
- NLR-Annotator upload☆60Updated last year
- A pipeline used to identify different modes of duplicated gene pairs☆93Updated 4 years ago
- Recovering genes from targeted sequence capture data☆113Updated 3 weeks ago
- MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes☆117Updated 2 weeks ago
- MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data☆92Updated 7 months ago
- ☆15Updated 2 months ago
- Tutorial about R package PopGenome☆40Updated 5 years ago
- A library for running k-mers based GWAS☆106Updated 3 weeks ago
- Generate an interactive dot plot from mummer or minimap alignments☆191Updated 10 months ago
- ☆25Updated this week
- A pipeline that accepts a VCF file to run through Admixture☆56Updated 2 months ago
- Analysis of convergence between organismal traits and DNA/protein sequences☆46Updated 4 months ago