Alternatives and similar repositories for GRAFIMO

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

• bcgsc / physlr
  Construct a Physical Map from Linked Reads
  ☆18Updated last year
• jltsiren / gbwtgraph
  GBWT-based handle graph
  ☆31Updated last week
• gymrek-lab / TRTools
  Toolkit for genome-wide analysis of tandem repeats
  ☆58Updated 2 months ago
• ComparativeGenomicsToolkit / taffy
  This is a library C/Python/CLI for working with TAF (.taf,.taf.gz) and MAF (.maf) alignment files
  ☆29Updated 4 months ago
• yanboANU / Kmer2SNP
  ☆26Updated 4 years ago
• mkpython3 / Mutation-Simulator
  A tool for simulating random mutations in any genome
  ☆43Updated last year
• CuiMiao-HIT / miniSNV
  ☆19Updated last month
• pangenome / maffer
  extract MSAs from genome variation graphs
  ☆34Updated 5 years ago
• cpockrandt / PhyloCSFpp
  PhyloCSF++ computes PhyloCSF tracks for whole-genome multiple sequence alignments, scores single MSA, annotates CDS features in GFF/GTF f…
  ☆31Updated 3 years ago
• mol-evol / panGPT
  A Generative Pre-Trained Transformer Package for Pangenomes
  ☆53Updated 7 months ago
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆23Updated last year
• DecodeGenetics / LRcaller
  ☆16Updated 4 years ago
• VGP / vgp-tools
  ☆28Updated 9 months ago
• jts / mbtools
  ☆14Updated 2 years ago
• PacificBiosciences / svpack
  Structural variant (SV) analysis tools
  ☆39Updated last year
• vgteam / GetBlunted
  For bluntifying overlapped GFAs
  ☆13Updated last year
• CMU-SAFARI / FastRemap
  FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…
  ☆26Updated 3 years ago
• mcfrith / dnarrange
  ☆16Updated 11 months ago
• marschall-lab / gaftools
  General purpose utility related to GAF files
  ☆29Updated last month
• tobiasrausch / lorax
  A long-read analysis toolbox for cancer and population genomics
  ☆23Updated 6 months ago
• at-cg / minichain
  Long-read aligner to pangenome graphs
  ☆29Updated last year
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 5 years ago
• fawaz-dabbaghieh / bubble_gun
  ☆41Updated 3 weeks ago
• RitchieLabIGH / iMOKA
  interactive Multi Objective K-mer Analysis
  ☆23Updated 2 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
• lh3 / sdust
  Symmetric DUST for finding low-complexity regions in DNA sequences
  ☆45Updated 5 months ago
• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆34Updated 2 years ago
• AndreaGuarracino / 1000G-ONT-F100-PGGB
  PanGenome Graph Building with the first 100 assemblies from the 1000G ONT Sequencing Consortium
  ☆12Updated 9 months ago
• olga24912 / SGTK
  Example of SGTK application for E.coli dataset:
  ☆32Updated 5 years ago
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆40Updated 2 years ago