Alternatives and similar repositories for ngsTools

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

• lh3 / psmc
  Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model
  ☆180Updated last month
• voichek / kmersGWAS
  A library for running k-mers based GWAS
  ☆122Updated last year
• rajanil / fastStructure
  A variational framework for inferring population structure from SNP genotype data.
  ☆142Updated 2 years ago
• JimWhiting91 / genotype_plot
  A set of functions to visualise genotypes based on a VCF
  ☆87Updated 3 years ago
• popgenmethods / smcpp
  SMC++ infers population history from whole-genome sequence data.
  ☆168Updated last year
• jpuritz / dDocent
  a bash pipeline for RAD sequencing
  ☆55Updated 10 months ago
• ddarriba / jmodeltest2
  Automatically exported from code.google.com/p/jmodeltest2
  ☆82Updated 4 years ago
• chasewnelson / SNPGenie
  Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
  ☆120Updated 2 years ago
• hahnlab / CAFE
  Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.
  ☆118Updated 4 years ago
• moiexpositoalonsolab / grenepipe
  A flexible, scalable, and reproducible pipeline to automate variant calling from raw sequence reads, with lots of bells and whistles - fo…
  ☆111Updated 5 months ago
• thlee / SNPhylo
  A pipeline to generate a phylogenetic tree from huge SNP data
  ☆92Updated last year
• nt246 / lcwgs-guide-tutorial
  ☆95Updated 4 years ago
• MariaNattestad / Assemblytics
  Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference gen…
  ☆145Updated 5 months ago
• szpiech / selscan
  Haplotype based scans for selection
  ☆137Updated last month
• chrishah / MITObim
  MITObim - mitochondrial baiting and iterative mapping
  ☆113Updated 4 years ago
• hardingnj / xpclr
  Code to compute the XP-CLR statistic to infer natural selection
  ☆101Updated 3 years ago
• dentearl / mafTools
  Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.
  ☆109Updated 3 years ago
• ksamuk / pixy
  Software for painlessly estimating average nucleotide diversity within and between populations
  ☆148Updated last month
• eead-csic-compbio / get_homologues
  GET_HOMOLOGUES: a versatile software package for pan-genome analysis
  ☆122Updated 2 weeks ago
• linzhi2013 / MitoZ
  MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
  ☆132Updated last year
• ANGSD / angsd
  Program for analysing NGS data.
  ☆250Updated 9 months ago
• tatumdmortimer / popgen-stats
  Scripts to calculate population genetics statistics
  ☆55Updated 7 years ago
• rrwick / Deepbinner
  a signal-level demultiplexer for Oxford Nanopore reads
  ☆126Updated 4 years ago
• mossmatters / HybPiper
  Recovering genes from targeted sequence capture data
  ☆130Updated 5 months ago
• caitiecollins / treeWAS
  treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes
  ☆106Updated 10 months ago
• malonge / RaGOO
  RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag
  ☆174Updated 4 years ago
• donovan-h-parks / STAMP
  Statistical Analysis of Metagenomic Profiles
  ☆94Updated 5 years ago
• BGI-shenzhen / PopLDdecay
  PopLDdecay: a fast and effective tool for linkage disequilibrium decay analysis based on variant call format(VCF) files
  ☆201Updated last year
• tpoorten / dotPlotly
  Generate an interactive dot plot from mummer or minimap alignments
  ☆210Updated last year
• harvardinformatics / TranscriptomeAssemblyTools
  A collection of scripts for processing fastq files in ways to improve de novo transcriptome assemblies, and for evaluating those assembli…
  ☆51Updated last year