Alternatives and similar repositories for HybPiper

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

• simonhmartin / twisst
  Topology weighting by iterative sampling of sub-trees
  ☆83Updated last year
• BenoitMorel / GeneRax
  ☆77Updated 7 months ago
• millanek / Dsuite
  Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species
  ☆183Updated last year
• tonig-evo / workshop-popgenome
  Tutorial about R package PopGenome
  ☆43Updated 6 years ago
• AntonelliLab / seqcap_processor
  Bioinformatic pipeline for processing Sequence Capture data for Phylogenetics
  ☆24Updated 2 years ago
• ksamuk / pixy
  Software for painlessly estimating average nucleotide diversity within and between populations
  ☆151Updated 3 months ago
• tbenavi1 / genomescope2.0
  Reference-free profiling of polyploid genomes
  ☆139Updated 3 months ago
• mrmckain / Fast-Plast
  Automated de novo assembly of whole chloroplast genomes.
  ☆48Updated last year
• popgenmethods / smcpp
  SMC++ infers population history from whole-genome sequence data.
  ☆171Updated 2 years ago
• mennodejong1986 / SambaR
  SambaR: Snp datA Management and Basic Analyses in R
  ☆32Updated 3 months ago
• enormandeau / stacks_workflow
  RADseq workflow using STACKS
  ☆61Updated last week
• nylander / catfasta2phyml
  Concatenates FASTA formatted files to one "phyml" (PHYLIP) formatted file
  ☆75Updated last year
• bpp / bpp
  Bayesian analysis of genomic sequence data under the multispecies coalescent model
  ☆111Updated last week
• linzhi2013 / MitoZ
  MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
  ☆134Updated last year
• chrishah / MITObim
  MITObim - mitochondrial baiting and iterative mapping
  ☆113Updated 5 years ago
• rhysf / Synima
  Synteny Imager
  ☆65Updated last month
• BGAcademy23 / smudgeplot
  Biodiversity Genomics Academy 2023: Understanding k-mers and ploidy using Smudgeplot
  ☆11Updated 2 years ago
• speciationgenomics / scripts
  Scripts for analysis used during the course
  ☆93Updated last year
• jamiemcg / BUSCO_phylogenomics
  BUSCO Phylogenomics | Utility script to construct species phylogenies using BUSCO proteins
  ☆92Updated last year
• JimWhiting91 / genotype_plot
  A set of functions to visualise genotypes based on a VCF
  ☆88Updated 3 years ago
• pblischak / HyDe
  Hybridization detection using phylogenetic invariants
  ☆52Updated last year
• RemiAllio / MitoFinder
  MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data
  ☆112Updated 4 months ago
• ncbi / fcs
  Foreign Contamination Screening caller scripts and documentation
  ☆156Updated 10 months ago
• 4ureliek / Parsing-RepeatMasker-Outputs
  Few scripts facilitating the extraction of info from Repeat Masker .out files
  ☆85Updated 4 years ago
• marekborowiec / AMAS
  Calculate summary statistics and manipulate multiple sequence alignments
  ☆90Updated last year
• chasewnelson / SNPGenie
  Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
  ☆120Updated 2 years ago
• fethalen / Patchwork
  Alignment-based retrieval and concatenation of phylogenetic markers from whole genome sequence (WGS) data
  ☆36Updated last year
• MetazoaPhylogenomicsLab / FANTASIA
  ☆33Updated 4 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…
  ☆67Updated last year
• petrelharp / local_pca
  Methods for examining PCA locally along the genome.
  ☆87Updated last year