Alternatives and similar repositories for shasta

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

• KolmogorovLab / hapdup
  Pipeline to convert a haploid assembly into diploid
  ☆100Updated 3 months ago
• PacificBiosciences / pb-CpG-tools
  Collection of tools for the analysis of CpG data
  ☆81Updated 3 months ago
• marbl / ModDotPlot
  ☆145Updated last week
• ArimaGenomics / mapping_pipeline
  Mapping pipeline for data generated using Arima-HiC
  ☆76Updated 11 months ago
• eblerjana / pangenie
  Pangenome-based genome inference
  ☆127Updated last month
• eldariont / svim-asm
  Structural Variant Identification Method using Genome Assemblies
  ☆115Updated 2 years ago
• marschall-lab / panacus
  Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
  ☆103Updated 2 months ago
• vgl-hub / gfastats
  A single fast and exhaustive tool for summary statistics and simultaneous *fa* (fasta, fastq, gfa [.gz]) genome assembly file manipulatio…
  ☆102Updated this week
• xiaochuanle / NECAT
  Nanopore data assembler
  ☆151Updated 3 years ago
• colindaven / awesome-pangenomes
  A list of software for pangenomics
  ☆112Updated this week
• bergmanlab / mcclintock
  Meta-pipeline to identify transposable element insertions using next generation sequencing data
  ☆99Updated last year
• nanoporetech / duplex-tools
  Splitting of sequence reads by internal adapter sequence search
  ☆51Updated last year
• daewoooo / SVbyEye
  ☆92Updated 2 weeks ago
• c-zhou / yahs
  Yet another Hi-C scaffolding tool
  ☆147Updated 6 months ago
• lh3 / pangene
  Constructing a pangenome gene graph
  ☆186Updated last month
• medvedevgroup / SibeliaZ
  A fast whole-genome aligner based on de Bruijn graphs
  ☆146Updated 3 months ago
• LomanLab / mockcommunity
  Long-read mock community experiments
  ☆105Updated 3 years ago
• sheinasim-USDA / HiFiAdapterFilt
  Remove CCS reads with remnant PacBio adapter sequences and convert outputs to a compressed .fastq (.fastq.gz).
  ☆89Updated 9 months ago
• CSU-KangHu / HiTE
  High-precision TE Annotator
  ☆118Updated this week
• 4ureliek / Parsing-RepeatMasker-Outputs
  Few scripts facilitating the extraction of info from Repeat Masker .out files
  ☆80Updated 3 years ago
• rrwick / Minipolish
  A tool for Racon polishing of miniasm assemblies
  ☆74Updated 4 years ago
• xiaochuanle / MECAT2
  ☆71Updated 5 years ago
• Gaius-Augustus / TSEBRA
  TSEBRA: Transcript Selector for BRAKER
  ☆47Updated 6 months ago
• EichlerLab / pav
  Phased assembly variant caller
  ☆115Updated 5 months ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆115Updated last month
• ncbi / fcs
  Foreign Contamination Screening caller scripts and documentation
  ☆129Updated 2 months ago
• PacificBiosciences / trgt
  Tandem repeat genotyping and visualization from PacBio HiFi data
  ☆116Updated 2 weeks ago
• mrvollger / StainedGlass
  Make colorful identity heatmaps of genomic sequence
  ☆115Updated 11 months ago
• lh3 / minipileup
  Simple pileup-based variant caller
  ☆89Updated 3 weeks ago
• epi2me-labs / wf-basecalling
  ☆39Updated this week