Alternatives and similar repositories for coalhmm

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

• OmarOakheart / nPhase
  Ploidy agnostic phasing pipeline and algorithm
  ☆48Updated last year
• maojanlin / biastools
  Reference bias measuring toolkit
  ☆19Updated 6 months ago
• ksiewert / BetaScan
  Genome-wide scan for balancing selection using beta statistic
  ☆29Updated 2 years ago
• compbiol / CAMSA
  CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies
  ☆24Updated 5 years ago
• SamueleSoraggi / HMMploidy
  A tool to calculate ploidy levels from genotype likelihoods and coverage using Hidden Markov Models
  ☆18Updated 2 years ago
• tbenavi1 / KMC
  Fast and frugal disk based k-mer counter
  ☆14Updated 4 years ago
• hannesbecher / shiny-k-mers
  Tetemer, an R package and Shiny app for interactively fitting population parameters to k-mer spectra of diploids, triploids, and tetraplo…
  ☆14Updated last year
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆27Updated last year
• reubwn / collinearity
  scripts to parse and analyse MCScanX collinearity output
  ☆32Updated 5 years ago
• pangenome / maffer
  extract MSAs from genome variation graphs
  ☆33Updated 5 years ago
• mrvollger / NucFreq
  ☆38Updated last month
• avaughn271 / CLUES2
  The GitHub for CLUES2, a method for inferring and evaluating evidence for selection.
  ☆15Updated 6 months ago
• alachins / sweed
  Likelihood-based Selective Sweep Detection
  ☆40Updated 2 years ago
• stschiff / msmc-tools
  Tools and Utilities for msmc and msmc2
  ☆49Updated 3 months ago
• wtsi-hpag / scanPAV
  Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
  ☆29Updated 7 years ago
• vgteam / sv-genotyping-paper
  ☆31Updated 5 years ago
• esolares / HapSolo
  Reduction of Althaps and Duplicate Contigs for Improved Hi-C Scaffolding
  ☆20Updated 8 months ago
• shahab-sarmashghi / Skmer
  Fast and accurate tool for estimating genomic distances between genome-skims
  ☆45Updated 2 years ago
• tlemane / kmdiff
  Differential k-mer analysis
  ☆37Updated last year
• ShunOuchi / GreenHill
  De novo chromosome-level scaffolding and phasing tool using Hi-C
  ☆29Updated 8 months ago
• MoritzBlumer / winpca
  WinPCA. A package for windowed principal component analysis.
  ☆38Updated 2 weeks ago
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆29Updated 4 months ago
• vpc-ccg / sedef
  Identification of segmental duplications in the genome
  ☆27Updated 3 years ago
• mahulchak / mscaffolder
  A comparative genome scaffolding tool
  ☆16Updated 7 years ago
• KolmogorovLab / hapdiff
  SV calling for diploid assemblies
  ☆29Updated last year
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 4 years ago
• ablab / TandemTools
  Tool for assessing/improving assembly quality in extra-long tandem repeats
  ☆47Updated 4 years ago
• sriramlab / ArchIE
  A statistical framework for reference-free inference of archaic local ancestry
  ☆16Updated 6 years ago
• kristinmlee / dmc
  Distinguishing among modes of convergent adaptation using population genomic data: statistical inference method, extensions, and examples
  ☆13Updated 6 years ago
• fgvieira / ngsF
  Estimation of per-individual inbreeding coefficients under a probabilistic framework
  ☆20Updated 2 years ago