Alternatives and similar repositories for EzClermont:

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

• 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
• kwongj / contig-puller
  Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence
  ☆13Updated 6 years ago
• wanyuac / GeneMates
  An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences
  ☆25Updated 2 years ago
• rrwick / Core-SNP-filter
  a tool to filter sites in a FASTA-format whole-genome pseudo-alignment
  ☆41Updated last month
• bvalot / pyMLST
  whole genome MLST analysis
  ☆40Updated 8 months ago
• raufs / skDER
  skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes to select representatives for comparative genomics and met…
  ☆41Updated 3 weeks ago
• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆35Updated 3 years ago
• USDA-VS / GenoFLU
  Influenza data pipeline to automate genotyping assignment
  ☆22Updated 2 months ago
• hoelzer-lab / ribap
  A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs
  ☆25Updated 2 months ago
• MrTomRod / scoary-2
  Calculate assocations between genes and traits
  ☆20Updated 2 months ago
• gbouras13 / plassembler
  Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
  ☆56Updated this week
• tseemann / scripts
  Miscellaneous Perl scripts from 20 years in microbial bioinformatics
  ☆17Updated 6 months ago
• michaelkyu / PlasX
  PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture
  ☆31Updated 2 years ago
• rrwick / Verticall
  Recombination-free trees
  ☆56Updated last year
• labgem / PlaScope
  Plasmid exploration of bacterial genomes
  ☆18Updated 2 years ago
• endixk / ezaai
  EzAAI - High Throughput Prokaryotic AAI Calculator
  ☆37Updated 3 months ago
• kwongj / maskrc-svg
  Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG
  ☆20Updated 5 years ago
• xinehc / melon
  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
  ☆34Updated last month
• andrewjpage / krocus
  Predict MLST directly from uncorrected long reads
  ☆26Updated 2 years ago
• DOH-JDJ0303 / bigbacter-nf
  ☆22Updated last month
• xthua / bacant
  This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.
  ☆20Updated last year
• RasmussenLab / phamb
  Downstream processing of VAMB binning for Viral Elucidation
  ☆47Updated 6 months ago
• wandreopoulos / deeplasmid
  ☆18Updated 4 months ago
• tseemann / phastaf
  Identify phage regions in bacterial genomes for masking purposes
  ☆30Updated 5 years ago
• andrewjpage / tiptoft
  Predict plasmids from uncorrected long read data
  ☆39Updated 5 years ago
• gtonkinhill / tracs
  Fast pairwise transmission inference from single genome and/or metagenomic data
  ☆19Updated 3 months ago
• phac-nml / sistr_cmd
  SISTR (Salmonella In Silico Typing Resource) command-line tool
  ☆26Updated last month
• staphopia / staphopia-sccmec
  Archived - please see updated sccmec tool at link below
  ☆13Updated 4 months ago
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆34Updated last month
• microbinfie-hackathon2020 / CSIS
  Code Safety Inspection Service
  ☆20Updated 2 years ago