Alternatives and similar repositories for ChopStitch

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

• VGP / vgp-tools
  ☆28Updated 8 months ago
• edawson / svaha
  Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]
  ☆11Updated last year
• langmead-lab / vargas
  ☆24Updated 4 months ago
• hanzou666 / msa2gfa
  A script to extract graph structure from multiple sequence alignment result and output as GFA/JSON for vg
  ☆11Updated 6 years ago
• lh3 / gfa1
  This repo is deprecated. Please use gfatools instead.
  ☆15Updated 7 years ago
• vgteam / GetBlunted
  For bluntifying overlapped GFAs
  ☆13Updated last year
• thegenemyers / PHASE-MERS
  Utilities to detect and profile `het-kmers`
  ☆12Updated last year
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆23Updated last year
• DecodeGenetics / LRcaller
  ☆16Updated 3 years ago
• pangenome / gafpack
  convert variation graph alignments to coverage maps over nodes
  ☆26Updated 3 weeks ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆26Updated last year
• jltsiren / gbwtgraph
  GBWT-based handle graph
  ☆31Updated this week
• bioinformatics-centre / AsmVar
  A software for discovery, genotyping and characterization of structural variants
  ☆22Updated last year
• uio-bmi / pyvg
  Importing vg json graphs to Python data structures.
  ☆12Updated 5 years ago
• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆34Updated 2 years ago
• edawson / svaha2
  Linear-time, low-memory construction of variation graphs
  ☆20Updated 5 years ago
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 4 years ago
• TGatter / LazyB
  Economic Genome Assembly from Low Coverage Illumina and Nanopore Data
  ☆19Updated 3 years ago
• jts / mbtools
  ☆14Updated 2 years ago
• MoinSebi / gSV
  ☆11Updated 3 years ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 3 weeks ago
• baoxingsong / genomeAlignment
  Compare different genome alignment tools using a wide range of genomes with different complexities.
  ☆14Updated 3 years ago
• yanboANU / Kmer2SNP
  ☆26Updated 4 years ago
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 4 years ago
• olga24912 / SGTK
  Example of SGTK application for E.coli dataset:
  ☆32Updated 5 years ago
• ptrebert / project-diploid-assembly
  Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data
  ☆16Updated last year
• richarddurbin / syng
  syncmer graphs, and perhaps other sorts of sequence graphs
  ☆24Updated last month
• medvedevgroup / BubbZ
  ☆15Updated 5 years ago
• rchikhi / 2022-pangenome-graphs-intro
  ☆28Updated last year
• rvaser / rala
  Layout module for raw de novo genome assembly of long uncorrected reads.
  ☆20Updated 4 years ago