ksamuk / pixy
Software for painlessly estimating average nucleotide diversity within and between populations
☆124Updated last week
Alternatives and similar repositories for pixy:
Users that are interested in pixy are comparing it to the libraries listed below
- Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species☆166Updated last month
- SMC++ infers population history from whole-genome sequence data.☆159Updated last year
- Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style …☆143Updated 6 months ago
- Recovering genes from targeted sequence capture data☆116Updated last month
- Version 5 of the CAFE phylogenetics software☆121Updated this week
- ☆82Updated 3 years ago
- Scripts for analysis used during the course☆87Updated 9 months ago
- A library for running k-mers based GWAS☆106Updated 3 months ago
- Reference-free profiling of polyploid genomes☆112Updated 7 months ago
- An accessible and flexible tool for fitting demographic models with dadi using custom or published models (available here), conducting go…☆63Updated 9 months ago
- TEsorter: an accurate and fast method to classify LTR-retrotransposons in plant genomes☆90Updated last week
- A flexible, scalable, and reproducible pipeline to automate variant calling from raw sequence reads, with lots of bells and whistles - fo…☆96Updated this week
- A telomere-to-telomere toolkit for gap-free genome assembly and centromeric repeat identification☆116Updated last week
- A set of functions to visualise genotypes based on a VCF☆85Updated 3 years ago
- A genome completeness evaluation tool based on miniprot☆190Updated 4 months ago
- MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data☆96Updated 10 months ago
- Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data☆111Updated last year
- MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes☆120Updated 3 months ago
- Generate an interactive dot plot from mummer or minimap alignments☆195Updated last year
- Code to compute the XP-CLR statistic to infer natural selection☆93Updated 2 years ago
- Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model☆162Updated 2 years ago
- NLR-Annotator upload☆63Updated last year
- Topology weighting by iterative sampling of sub-trees☆73Updated last month
- Detailed bioinformatics scripts and methods used in the NAM genome paper.☆77Updated last month
- Earl Grey: A fully automated TE curation and annotation pipeline☆155Updated last week
- Find, circularise and annotate mitogenome from PacBio assemblies☆174Updated 3 weeks ago
- Few scripts facilitating the extraction of info from Repeat Masker .out files☆78Updated 3 years ago
- Yet another Hi-C scaffolding tool☆139Updated 3 months ago
- Methods for examining PCA locally along the genome.☆75Updated 6 months ago
- LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…☆195Updated last month