speciationgenomics / scripts
Scripts for analysis used during the course
☆85Updated 8 months ago
Alternatives and similar repositories for scripts:
Users that are interested in scripts are comparing it to the libraries listed below
- ☆79Updated 3 years ago
- Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species☆166Updated 3 weeks ago
- An accessible and flexible tool for fitting demographic models with dadi using custom or published models (available here), conducting go…☆63Updated 8 months ago
- Code to compute the XP-CLR statistic to infer natural selection☆91Updated 2 years ago
- A new simple and efficient software to PCA and Cluster For popolation VCF File☆67Updated 2 weeks ago
- SMC++ infers population history from whole-genome sequence data.☆157Updated 11 months ago
- Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style …☆141Updated 5 months ago
- Multi-level visualization of genomic statistical variables on rectangular chromosomes☆85Updated last month
- Tutorials on phylogenetic and phylogenomic inference☆41Updated 8 months ago
- Reference-free profiling of polyploid genomes☆111Updated 6 months ago
- Topology weighting by iterative sampling of sub-trees☆73Updated 2 weeks ago
- Few scripts facilitating the extraction of info from Repeat Masker .out files☆78Updated 3 years ago
- BUSCO Phylogenomics | Utility script to construct species phylogenies using BUSCO proteins☆58Updated 3 months ago
- MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes☆119Updated 2 months ago
- NLR-Annotator upload☆62Updated last year
- VCF2Dis: A new simple and efficient software to calculate p-distance matrix and construct population phylogeny based Variant Call Forma…☆83Updated 2 weeks ago
- ☆73Updated 6 months ago
- A library for running k-mers based GWAS☆106Updated 2 months ago
- A set of functions to visualise genotypes based on a VCF☆85Updated 2 years ago
- Repository with documentation file of our Jan 22-24 workshop on Computational Population Genetics in Jena, Germany.☆12Updated 5 years ago
- Tutorial about R package PopGenome☆41Updated 5 years ago
- ☆26Updated last month
- Recovering genes from targeted sequence capture data☆115Updated last week
- Version 5 of the CAFE phylogenetics software☆121Updated 2 months ago
- RADseq workflow using STACKS☆57Updated last month
- Software for painlessly estimating average nucleotide diversity within and between populations☆124Updated 7 months ago
- Plastid Genome Annotator☆49Updated 4 years ago
- Yet another Hi-C scaffolding tool☆136Updated 2 months ago
- Generate an interactive dot plot from mummer or minimap alignments☆194Updated last year
- Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model☆159Updated 2 years ago