Alternatives and similar repositories for scripts

Users that are interested in scripts are comparing it to the libraries listed below

• millanek / Dsuite
  Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species
  ☆172Updated 5 months ago
• nt246 / lcwgs-guide-tutorial
  ☆86Updated 3 years ago
• hardingnj / xpclr
  Code to compute the XP-CLR statistic to infer natural selection
  ☆97Updated 2 years ago
• dportik / dadi_pipeline
  An accessible and flexible tool for fitting demographic models with dadi using custom or published models (available here), conducting go…
  ☆65Updated last year
• simonhmartin / twisst
  Topology weighting by iterative sampling of sub-trees
  ☆79Updated 5 months ago
• popgenmethods / smcpp
  SMC++ infers population history from whole-genome sequence data.
  ☆168Updated last year
• isaacovercast / easySFS
  Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style …
  ☆151Updated 9 months ago
• tbenavi1 / genomescope2.0
  Reference-free profiling of polyploid genomes
  ☆116Updated 10 months ago
• BGI-shenzhen / RectChr
  Multi-level visualization of genomic statistical variables on rectangular chromosomes
  ☆90Updated 6 months ago
• 4ureliek / Parsing-RepeatMasker-Outputs
  Few scripts facilitating the extraction of info from Repeat Masker .out files
  ☆80Updated 4 years ago
• steuernb / NLR-Annotator
  NLR-Annotator upload
  ☆66Updated last year
• mossmatters / HybPiper
  Recovering genes from targeted sequence capture data
  ☆123Updated 4 months ago
• millanek / tutorials
  Tutorials on phylogenetic and phylogenomic inference
  ☆48Updated last month
• c-zhou / yahs
  Yet another Hi-C scaffolding tool
  ☆153Updated 7 months ago
• BGI-shenzhen / VCF2Dis
  VCF2Dis: A new simple and efficient software to calculate p-distance matrix and construct population phylogeny based Variant Call Forma…
  ☆96Updated 3 weeks ago
• tpoorten / dotPlotly
  Generate an interactive dot plot from mummer or minimap alignments
  ☆202Updated last year
• bdesanctis / bamdam
  A post-mapping authentication toolkit for ancient metagenomics
  ☆9Updated last month
• chenlianfu / geta
  ☆79Updated 10 months ago
• voichek / kmersGWAS
  A library for running k-mers based GWAS
  ☆109Updated 7 months ago
• JimWhiting91 / genotype_plot
  A set of functions to visualise genotypes based on a VCF
  ☆86Updated 3 years ago
• hewm2008 / VCF2PCACluster
  A new simple and efficient software to PCA and Cluster For popolation VCF File
  ☆77Updated 4 months ago
• jamiemcg / BUSCO_phylogenomics
  BUSCO Phylogenomics | Utility script to construct species phylogenies using BUSCO proteins
  ☆68Updated 7 months ago
• pontussk / PMDtools
  Compute postmortem damage patterns and decontaminate ancient genomes
  ☆16Updated 4 years ago
• enormandeau / stacks_workflow
  RADseq workflow using STACKS
  ☆57Updated 2 weeks ago
• pblischak / HyDe
  Hybridization detection using phylogenetic invariants
  ☆47Updated 7 months ago
• linzhi2013 / MitoZ
  MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
  ☆124Updated 6 months ago
• szpiech / selscan
  Haplotype based scans for selection
  ☆130Updated last month
• RemiAllio / MitoFinder
  MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data
  ☆104Updated last year
• ksamuk / pixy
  Software for painlessly estimating average nucleotide diversity within and between populations
  ☆132Updated last month
• chrishah / MITObim
  MITObim - mitochondrial baiting and iterative mapping
  ☆112Updated 4 years ago