Alternatives and similar repositories for paleomix

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

• sujaikumar / assemblage
  Tools for working with second gen assemblies, fasta sequences, etc
  ☆93Updated 9 years ago
• rhysf / Synima
  Synteny Imager
  ☆64Updated 2 months ago
• stevemussmann / admixturePipeline
  A pipeline that accepts a VCF file to run through Admixture
  ☆62Updated 9 months ago
• dwinter / pafr
  Read, manipulate and visualize 'Pairwise mApping Format' data in R
  ☆74Updated 4 years ago
• auton1 / LDhat
  Estimate recombination rates from population genetic data
  ☆68Updated 5 years ago
• mapleforest / HaploMerger2
  ☆44Updated 8 years ago
• clemgoub / dnaPipeTE
  dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…
  ☆58Updated 2 years ago
• josephryan / estimate_genome_size.pl
  Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish
  ☆57Updated 2 years ago
• genomeannotation / GAG
  Generates an NCBI .tbl file of annotations on a genome.
  ☆68Updated 7 years ago
• petrelharp / local_pca
  Methods for examining PCA locally along the genome.
  ☆83Updated last year
• tonig-evo / workshop-popgenome
  Tutorial about R package PopGenome
  ☆43Updated 6 years ago
• aubombarely / Organelle_PBA
  A software to assemble chloroplast and mitochodrial genomes using PacBio data
  ☆40Updated 5 years ago
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆98Updated 2 years 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…
  ☆27Updated 7 years ago
• JimWhiting91 / genotype_plot
  A set of functions to visualise genotypes based on a VCF
  ☆87Updated 3 years ago
• z0on / GO_MWU
  Rank-based Gene Ontology analysis of gene expression data
  ☆42Updated 2 years ago
• mfoll / BayeScan
  Detecting natural selection from population-based genetic data
  ☆28Updated 6 years ago
• harvardinformatics / snpArcher
  Snakemake workflow for highly parallel variant calling designed for ease-of-use in non-model organisms.
  ☆82Updated last month
• joepickrell / pophistory-tutorial
  Tutorial on using popular tools for learning about population history
  ☆51Updated 7 years ago
• mahulchak / svmu
  A program to call variants from genome alignment
  ☆81Updated 5 months ago
• drostlab / LTRpred
  De novo annotation of young retrotransposons
  ☆48Updated 3 years ago
• cboursnell / crb-blast
  Conditional Reciprocal Best Blast
  ☆42Updated 8 years ago
• PhHermann / LDJump
  R Package to Estimate Variable Recombination Rates using Population Genetic Data
  ☆42Updated 5 years ago
• mrmckain / Fast-Plast
  Automated de novo assembly of whole chloroplast genomes.
  ☆47Updated last year
• enormandeau / go_enrichment
  Transcripts annotation and GO enrichment Fisher tests
  ☆26Updated 2 years ago
• stschiff / msmc-tools
  Tools and Utilities for msmc and msmc2
  ☆48Updated 2 months ago
• santiagosnchez / vcf2fasta
  Converts a VCF file to a FASTA alignment provided a reference genome and a GFF file
  ☆52Updated 2 months ago
• yjx1217 / LRSDAY
  LRSDAY: Long-read Sequencing Data Analysis for Yeasts
  ☆32Updated last year
• darwintreeoflife / darwintreeoflife.data
  Interim data for the Darwin Tree of Life Project
  ☆33Updated 5 years ago
• HullUni-bioinformatics / TE-search-tools
  Python wrappers for programs that search for transposable elements
  ☆19Updated 9 years ago