Alternatives and similar repositories for STITCH

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

• JimWhiting91 / genotype_plot
  A set of functions to visualise genotypes based on a VCF
  ☆87Updated 3 years ago
• thlee / SNPhylo
  A pipeline to generate a phylogenetic tree from huge SNP data
  ☆93Updated 2 years ago
• sujaikumar / assemblage
  Tools for working with second gen assemblies, fasta sequences, etc
  ☆93Updated 9 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 6 months ago
• voichek / kmersGWAS
  A library for running k-mers based GWAS
  ☆123Updated last year
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆98Updated 2 years ago
• Trinotate / Trinotate.github.io
  web documentation for Trinotate
  ☆48Updated 2 years ago
• Oshlack / Corset
  Software for clustering de novo assembled transcripts and counting overlapping reads
  ☆76Updated 3 years ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆120Updated 3 months ago
• odelaneau / shapeit4
  Segmented HAPlotype Estimation and Imputation Tool
  ☆98Updated 2 years ago
• odelaneau / shapeit5
  Segmented HAPlotype Estimation and Imputation Tool
  ☆96Updated last month
• stevemussmann / admixturePipeline
  A pipeline that accepts a VCF file to run through Admixture
  ☆63Updated last year
• 10XGenomics / supernova
  10x Genomics Linked-Read Diploid De Novo Assembler
  ☆65Updated 7 years ago
• bergmanlab / mcclintock
  Meta-pipeline to identify transposable element insertions using next generation sequencing data
  ☆105Updated 7 months ago
• PacificBiosciences / barcoding
  Lima - Demultiplex Barcoded PacBio Samples
  ☆67Updated 8 months ago
• parklab / xTea
  Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics
  ☆118Updated 6 months ago
• szpiech / selscan
  Haplotype based scans for selection
  ☆137Updated this week
• dentearl / mafTools
  Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.
  ☆109Updated 3 years ago
• kcleal / dysgu
  Toolkit for calling structural variants using short or long reads
  ☆115Updated 3 weeks ago
• giesselmann / nanopype
  Snakemake pipelines for nanopore sequencing data archiving and processing
  ☆91Updated 3 years ago
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆152Updated last month
• cpockrandt / genmap
  GenMap - Fast and Exact Computation of Genome Mappability
  ☆113Updated last year
• nanoporetech / pinfish
  Tools to annotate genomes using long read transcriptomics data
  ☆45Updated 5 years ago
• rwdavies / QUILT
  QUILT: Low coverage whole genome sequence imputation with large reference panels
  ☆65Updated last month
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆51Updated 5 years ago
• bergmanlab / drosophila-transposons
  Drosophila transposable element canonical sequences
  ☆29Updated 3 years ago
• brentp / duphold
  don't get DUP'ed or DEL'ed by your putative SVs.
  ☆107Updated 5 years ago
• wdecoster / nano-snakemake
  A snakemake pipeline for SV analysis from nanopore genome sequencing
  ☆52Updated 5 years ago
• nt246 / lcwgs-guide-tutorial
  ☆98Updated 4 years ago
• Oshlack / Lace
  Building SuperTranscripts: A linear representation of transcriptome data
  ☆68Updated 4 years ago