Alternatives and similar repositories for shasta:

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

• a-slide / pycoQC
  pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…
  ☆276Updated 6 months ago
• marbl / Winnowmap
  Long read / genome alignment software
  ☆284Updated 5 months ago
• lbcb-sci / racon
  Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads
  ☆219Updated last year
• wdecoster / nanofilt
  Filtering and trimming of long read sequencing data
  ☆201Updated 2 years ago
• HKU-BAL / Clair3
  Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
  ☆276Updated last week
• KamilSJaron / smudgeplot
  Inference of ploidy and heterozygosity structure using whole genome sequencing data
  ☆265Updated 2 months ago
• wdecoster / nanopack
  An overview of all nanopack tools
  ☆239Updated last year
• schneebergerlab / syri
  Synteny and Rearrangement Identifier
  ☆376Updated 3 weeks ago
• isovic / racon
  Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr…
  ☆278Updated 11 months ago
• schatzlab / genomescope
  Fast genome analysis from unassembled short reads
  ☆288Updated last year
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆319Updated 10 months ago
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆221Updated 3 months ago
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆249Updated this week
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆266Updated 2 months ago
• philres / ngmlr
  NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…
  ☆298Updated last year
• dfguan / purge_dups
  haplotypic duplication identification tool
  ☆234Updated last year
• marbl / merqury
  k-mer based assembly evaluation
  ☆309Updated 9 months ago
• fritzsedlazeck / SURVIVOR
  Toolset for SV simulation, comparison and filtering
  ☆377Updated last year
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆210Updated last week
• broadinstitute / pilon
  Pilon is an automated genome assembly improvement and variant detection tool
  ☆357Updated 3 years ago
• sanger-pathogens / circlator
  A tool to circularize genome assemblies
  ☆240Updated last year
• marbl / SALSA
  SALSA: A tool to scaffold long read assemblies with Hi-C data
  ☆184Updated 11 months ago
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆210Updated 4 months ago
• mahulchak / quickmerge
  A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.
  ☆206Updated 2 years ago
• ryanlayer / samplot
  Plot structural variant signals from many BAMs and CRAMs
  ☆539Updated 9 months ago
• rrwick / Filtlong
  quality filtering tool for long reads
  ☆327Updated last year
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆302Updated 2 weeks ago
• tjiangHIT / cuteSV
  Long read based human genomic structural variation detection with cuteSV
  ☆259Updated last week
• pangenome / pggb
  the pangenome graph builder
  ☆425Updated last week
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆190Updated last month