lh3 / psmcLinks
Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model
☆174Updated this week
Alternatives and similar repositories for psmc
Users that are interested in psmc are comparing it to the libraries listed below
Sorting:
- SMC++ infers population history from whole-genome sequence data.☆167Updated last year
- PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files☆199Updated last year
- A library for running k-mers based GWAS☆118Updated last year
- Haplotype based scans for selection☆134Updated 2 weeks ago
- Software for painlessly estimating average nucleotide diversity within and between populations☆147Updated last week
- Generate an interactive dot plot from mummer or minimap alignments☆210Updated last year
- Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species☆179Updated 10 months ago
- ☆218Updated 9 months ago
- Scripts for analysis used during the course☆92Updated last year
- Code to compute the XP-CLR statistic to infer natural selection☆100Updated 3 years ago
- A set of functions to visualise genotypes based on a VCF☆87Updated 3 years ago
- Version 5 of the CAFE phylogenetics software☆148Updated 8 months ago
- Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.☆117Updated 4 years ago
- MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes☆132Updated 11 months ago
- Reference-free profiling of polyploid genomes☆129Updated last month
- MITObim - mitochondrial baiting and iterative mapping☆114Updated 4 years ago
- ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data☆177Updated last year
- RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag☆172Updated 4 years ago
- Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style …☆158Updated last year
- Any Way to Show Multi genomic Synteny☆209Updated 3 months ago
- Programs to analyse NGS data for population genetics purposes☆177Updated last year
- Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data☆117Updated 2 years ago
- Ultra-fast de novo assembler using long noisy reads☆135Updated 4 years ago
- LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…☆212Updated 4 months ago
- Sensitive alignment of genomes with high sequence diversity, extensive structural polymorphism and whole-genome duplication variation☆177Updated 2 weeks ago
- Program for analysing NGS data.☆245Updated 7 months ago
- TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annot…☆196Updated 4 months ago
- Find, circularise and annotate mitogenome from PacBio assemblies☆189Updated 5 months ago
- VCF2Dis: A new simple and efficient software to calculate p-distance matrix and construct population phylogeny based Variant Call Forma…☆98Updated 2 months ago
- A pipeline to generate a phylogenetic tree from huge SNP data☆91Updated last year