Alternatives and similar repositories for local_pca

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

• PhHermann / LDJump
  R Package to Estimate Variable Recombination Rates using Population Genetic Data
  ☆42Updated 5 years ago
• nt246 / physalia-lcwgs
  Files for the the Physalia course on Population genomic inference from low-coverage whole-genome sequencing data, Oct 10-13, 2022
  ☆59Updated 6 months ago
• xiaoming-liu / stairway-plot-v2
  The stairway plot is a method for inferring detailed population demographic history using the site frequency spectrum (SFS) from DNA sequ…
  ☆43Updated 2 years ago
• mrmckain / Fast-Plast
  Automated de novo assembly of whole chloroplast genomes.
  ☆45Updated 7 months ago
• ngarud / SelectionHapStats
  SelectionHapStats is a repository of Python scripts written to identify natural selection events in the genome and R scripts written to v…
  ☆26Updated 6 years ago
• petrikemppainen / LDna
  LDna: an R package to perform linkage disequilibrium network analysis
  ☆31Updated last year
• popgenmethods / momi2
  Infer demographic history with the Moran model
  ☆47Updated 2 months ago
• speciationgenomics / speciationgenomics.github.io
  Repository for speciation genomics website
  ☆25Updated 9 months 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
• MikkelSchubert / paleomix
  Pipelines and tools for the processing of ancient and modern HTS data.
  ☆47Updated last month
• JimWhiting91 / genotype_plot
  A set of functions to visualise genotypes based on a VCF
  ☆86Updated 3 years ago
• nt246 / lcwgs-guide-tutorial
  ☆85Updated 3 years ago
• AntonelliLab / seqcap_processor
  Bioinformatic pipeline for processing Sequence Capture data for Phylogenetics
  ☆21Updated last year
• hillerlab / make_lastz_chains
  Portable solution to generate genome alignment chains using lastz
  ☆55Updated 2 weeks ago
• miriammiyagi / QuIBL
  Quantifying Introgression via Branch Lengths
  ☆52Updated 2 years ago
• mfoll / BayeScan
  Detecting natural selection from population-based genetic data
  ☆27Updated 6 years ago
• tonig-evo / workshop-popgenome
  Tutorial about R package PopGenome
  ☆41Updated 6 years ago
• stschiff / msmc-tools
  Tools and Utilities for msmc and msmc2
  ☆47Updated last year
• mmatschiner / F4
  Assessing confidence in introgression among four populations
  ☆27Updated 4 years ago
• kr-colab / diploSHIC
  feature-based deep learning for the identification of selective sweeps
  ☆55Updated 3 weeks ago
• mennodejong1986 / SambaR
  SambaR: Snp datA Management and Basic Analyses in R
  ☆28Updated last week
• shenglin-liu / vcf2sfs
  R functions for generating site frequency spectra (SFS) from a VCF file.
  ☆27Updated 5 years ago
• alek0991 / iSAFE
  Pinpoints the mutation favored by selection
  ☆34Updated 3 years ago
• Rosemeis / fastmixture
  Software for ancestry estimation in unrelated individuals
  ☆18Updated last week
• rtfcoimbra / Coimbra-et-al-2021_CurrBiol
  Code used to analyse WGS data of giraffe in Coimbra et al. 2021
  ☆11Updated last year
• darwintreeoflife / darwintreeoflife.data
  Interim data for the Darwin Tree of Life Project
  ☆33Updated 4 years ago
• dwinter / pafr
  Read, manipulate and visualize 'Pairwise mApping Format' data in R
  ☆74Updated 4 years ago
• pgugger / LandscapeGenomics
  Tutorials for bioinformatics and data analysis related to landscape genomics
  ☆28Updated 6 years ago
• Rosemeis / pcangsd
  Framework for analyzing low depth NGS data in heterogeneous populations using PCA.
  ☆49Updated 2 weeks ago
• speciationgenomics / presentations
  Presentations from the course
  ☆36Updated last year