Alternatives and similar repositories for pantagruel:

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

• andrewjpage / tiptoft
  Predict plasmids from uncorrected long read data
  ☆39Updated 5 years ago
• rrwick / Verticall
  Recombination-free trees
  ☆56Updated last year
• kussell-lab / mcorr
  Inferring bacterial recombination rates from large-scale sequencing datasets.
  ☆42Updated last year
• hoelzer-lab / ribap
  A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs
  ☆25Updated 3 months ago
• leylabmpi / Struo
  Ley Lab MetaGenome Profiler DataBase generator
  ☆48Updated 2 years ago
• WatsonLab / MAGpy
  Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)
  ☆62Updated last year
• tseemann / cgmlst-dists
  🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables
  ☆27Updated last year
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆54Updated 5 months ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆63Updated 2 years ago
• irycisBioinfo / PATO
  PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.
  ☆58Updated last year
• MrTomRod / scoary-2
  Calculate assocations between genes and traits
  ☆20Updated 3 months ago
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆52Updated last month
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆51Updated 3 years ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆53Updated last year
• snayfach / MAGpurify
  Improvement of metagenome-assembled genomes
  ☆51Updated 4 years ago
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆26Updated last month
• bvalot / pyMLST
  whole genome MLST analysis
  ☆40Updated 8 months ago
• klebgenomics / Kaptive
  ☆44Updated 2 weeks ago
• santeripuranen / SpydrPick
  SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.
  ☆13Updated 2 years ago
• katholt / RedDog
  ☆36Updated 2 years ago
• boulund / phaster_scripts
  Small utility script to submit genomes to PHASTER for phage detection
  ☆23Updated 3 years ago
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆43Updated 4 years ago
• patrickwest / EukRep_Pipeline
  ☆24Updated 6 years ago
• gtonkinhill / fastbaps
  A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data
  ☆59Updated 2 years ago
• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆35Updated 3 years ago
• aldertzomer / RFPlasmid
  Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf
  ☆48Updated 9 months ago
• Serka-M / mmlong2
  Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes
  ☆41Updated last month
• richardmleggett / MARTi
  Metagenomic Analysis in Real Time
  ☆19Updated last week
• quadram-institute-bioscience / socru
  Order and orientation of complete bacterial genomes
  ☆27Updated last year
• MigleSur / GenAPI
  Gene Absence Presence Identification tool.
  ☆26Updated last year