Alternatives and similar repositories for ggCaller

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

• rrwick / Verticall
  Recombination-free trees
  ☆60Updated 2 months ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆54Updated 2 years ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆65Updated 3 years ago
• katerinakazantseva / strainy
  Graph-based assembly phasing
  ☆90Updated 6 months ago
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆62Updated 8 months ago
• bacpop / ska.rust
  Split k-mer analysis – version 2
  ☆98Updated last month
• kussell-lab / mcorr
  Inferring bacterial recombination rates from large-scale sequencing datasets.
  ☆42Updated 2 years ago
• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆51Updated 4 years ago
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆77Updated 2 months ago
• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆35Updated 4 years ago
• tseemann / phastaf
  Identify phage regions in bacterial genomes for masking purposes
  ☆34Updated 6 years ago
• mtisza1 / Cenote-Taker3
  Discover and annotate the virome
  ☆53Updated last month
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆51Updated last month
• dib-lab / charcoal
  Remove contaminated contigs from genomes using k-mers and taxonomies.
  ☆59Updated 2 years ago
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆33Updated 10 months ago
• jts / assembly_accuracy
  tools for assessing the accuracy of genome assemblies
  ☆35Updated last year
• hoelzer-lab / ribap
  A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs
  ☆31Updated last month
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆45Updated 5 years ago
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆42Updated 3 weeks ago
• bvalot / pyMLST
  whole genome MLST analysis
  ☆49Updated 5 months ago
• bede / hostile
  Precise host read removal
  ☆108Updated 2 months ago
• cultivarium / MicrobeMod
  A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing
  ☆50Updated 2 months ago
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆69Updated 4 years ago
• metagentools / GraphBin2
  ☯️🧬 Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs
  ☆37Updated 3 weeks ago
• virus-evolution / gofasta
  ☆36Updated 7 months ago
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆64Updated 2 weeks ago
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆46Updated 3 weeks ago
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆52Updated 4 years ago
• gbouras13 / plassembler
  Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
  ☆81Updated last month
• brinkmanlab / islandpath
  IslandPath standalone software
  ☆33Updated 2 years ago