Alternatives and similar repositories for chewBBACA:

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

• phac-nml / mob-suite
  MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
  ☆144Updated 2 weeks ago
• epi2me-labs / wf-metagenomics
  Metagenomic classification of long-read sequencing data
  ☆82Updated 3 weeks ago
• nickjcroucher / gubbins
  Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
  ☆187Updated last month
• gtonkinhill / panaroo
  An updated pipeline for pangenome investigation
  ☆297Updated 2 months ago
• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆126Updated last month
• MGXlab / CAT_pack
  CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…
  ☆211Updated last week
• eead-csic-compbio / get_homologues
  GET_HOMOLOGUES: a versatile software package for pan-genome analysis
  ☆114Updated 2 months ago
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆114Updated 11 months ago
• tseemann / nullarbor
  "Reads to report" for public health and clinical microbiology
  ☆139Updated last year
• aineniamh / snipit
  snipit: summarise snps relative to your reference sequence
  ☆158Updated 3 months ago
• rrwick / Autocycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆125Updated last week
• tseemann / snp-dists
  Pairwise SNP distance matrix from a FASTA sequence alignment
  ☆135Updated last year
• neherlab / pan-genome-analysis
  Processing pipeline for pan-genome visulization and exploration
  ☆138Updated last year
• AdmiralenOla / Scoary
  Pan-genome wide association studies
  ☆193Updated 11 months ago
• PacificBiosciences / pb-metagenomics-tools
  Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics
  ☆188Updated 2 months ago
• tseemann / mlst
  Scan contig files against PubMLST typing schemes
  ☆223Updated 2 years ago
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆320Updated 11 months ago
• xiezhq / ISEScan
  A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome
  ☆94Updated 3 weeks ago
• linzhi2013 / MitoZ
  MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
  ☆122Updated 6 months ago
• tseemann / shovill
  ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads
  ☆222Updated 2 years ago
• chklovski / CheckM2
  Assessing the quality of metagenome-derived genome bins using machine learning
  ☆206Updated last month
• tseemann / barrnap
  Bacterial ribosomal RNA predictor
  ☆242Updated last year
• tseemann / any2fasta
  Convert various sequence formats to FASTA
  ☆135Updated 2 years ago
• qiyunlab / HGTector
  HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.
  ☆133Updated last year
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆303Updated 3 weeks ago
• ncbi / fcs
  Foreign Contamination Screening caller scripts and documentation
  ☆129Updated last month
• sanger-pathogens / circlator
  A tool to circularize genome assemblies
  ☆241Updated last year
• jtlovell / GENESPACE
  ☆206Updated 3 months ago
• andersen-lab / ivar
  iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.
  ☆120Updated this week
• ParkinsonLab / Metatranscriptome-Workshop
  Metatranscriptomics Tutorial
  ☆62Updated last year