zheminzhou / EToKi

Related projects ⓘ

Alternatives and complementary repositories for EToKi

• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆76Updated 2 years ago
• aldertzomer / RFPlasmid
  Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf
  ☆48Updated 7 months ago
• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆35Updated 3 years ago
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆42Updated 4 years ago
• cultivarium / MicrobeMod
  A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing
  ☆39Updated 3 months ago
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆52Updated 2 months ago
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆68Updated last year
• kussell-lab / mcorr
  Inferring bacterial recombination rates from large-scale sequencing datasets.
  ☆41Updated last year
• simonrharris / SKA
  Split Kmer Analysis
  ☆63Updated 2 years ago
• tseemann / phastaf
  Identify phage regions in bacterial genomes for masking purposes
  ☆30Updated 5 years ago
• jhawkey / IS_mapper
  IS mapping software
  ☆51Updated 2 years ago
• endixk / ezaai
  EzAAI - High Throughput Prokaryotic AAI Calculator
  ☆36Updated last month
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆51Updated 3 years ago
• gbouras13 / dnaapler
  Reorients assembled microbial sequences
  ☆100Updated this week
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆49Updated this week
• xinehc / melon
  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
  ☆25Updated last week
• AnantharamanLab / vRhyme
  Binning Virus Genomes from Metagenomes
  ☆58Updated 2 years ago
• RasmussenLab / phamb
  Downstream processing of VAMB binning for Viral Elucidation
  ☆46Updated 4 months ago
• shenwei356 / gtdb-taxdump
  GTDB taxonomy taxdump files with trackable TaxIds
  ☆49Updated 6 months ago
• MDU-PHL / abritamr
  A pipeline for running AMRfinderPlus and collating results into functional classes
  ☆71Updated 3 months ago
• lmrodriguezr / nonpareil
  Estimate metagenomic coverage and sequence diversity
  ☆46Updated 3 months ago
• gbouras13 / plassembler
  Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
  ☆51Updated 6 months ago
• denglab / SeqSero2
  SeqSero2
  ☆33Updated 7 months ago
• patrickwest / EukRep_Pipeline
  ☆24Updated 5 years ago
• Serka-M / mmlong2
  Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes
  ☆38Updated 5 months ago
• philarevalo / PopCOGenT
  Microbial Populations as Clusters Of Gene Transfer
  ☆42Updated 11 months ago
• katholt / RedDog
  ☆34Updated 2 years ago
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆88Updated 2 months ago
• AnantharamanLab / PropagAtE
  Prophage Activity Estimator
  ☆26Updated 5 months ago
• phac-nml / sistr_cmd
  SISTR (Salmonella In Silico Typing Resource) command-line tool
  ☆25Updated last month