epi2me-labs / wf-bacterial-genomes

Related projects: ⓘ

• MDU-PHL / abritamr
  A pipeline for running AMRfinderPlus and collating results into functional classes
  ☆68Updated last month
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆67Updated last year
• AnantharamanLab / vRhyme
  Binning Virus Genomes from Metagenomes
  ☆55Updated 2 years ago
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆69Updated 3 years ago
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆86Updated last month
• takaram / kofam_scan
  CLI tool to annotate genes with KOfam
  ☆69Updated last year
• robotoD / GenoVi
  GenoVi, an automated customizable circular genome visualizer for bacteria and archaea
  ☆77Updated last year
• filip-husnik / pseudofinder
  Detection of pseudogene candidates in bacterial and archaeal genomes.
  ☆42Updated 5 months ago
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆75Updated 2 years ago
• moshi4 / ANIclustermap
  A tool for drawing ANI clustermap between all-vs-all microbial genomes
  ☆66Updated last week
• BU-ISCIII / plasmidID
  PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…
  ☆37Updated 3 years ago
• raw-lab / MetaCerberus
  Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…
  ☆47Updated last week
• snayfach / MGV
  Supporting code for uncultivated gut virus manuscript
  ☆64Updated last year
• epi2me-labs / wf-artic
  ARTIC SARS-CoV-2 workflow and reporting
  ☆47Updated this week
• bluenote-1577 / sylph
  ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
  ☆136Updated 2 weeks ago
• cultivarium / MicrobeMod
  A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing
  ☆35Updated last month
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆42Updated 4 years ago
• epi2me-labs / wf-16s
  ☆19Updated this week
• Hydro3639 / NanoPhase
  Reference-quality genome reconstruction from complex metagenomes (or bacterial isolates) using only Nanopore long reads or both long and …
  ☆23Updated 11 months ago
• moshi4 / COGclassifier
  A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category
  ☆52Updated last week
• irycisBioinfo / PATO
  PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.
  ☆54Updated 11 months ago
• shenwei356 / gtdb-taxdump
  GTDB taxonomy taxdump files with trackable TaxIds
  ☆46Updated 4 months ago
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆50Updated 3 weeks ago
• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆94Updated this week
• jhawkey / IS_mapper
  IS mapping software
  ☆50Updated 2 years ago
• adlape95 / Assembly-methods-nanopore
  Assembly methods for nanopore-based metagenomic sequencing: a comparative study
  ☆18Updated 4 years ago
• linsalrob / PhiSpy
  Prediction of prophages from bacterial genomes
  ☆70Updated 10 months ago
• epi2me-labs / wf-metagenomics
  Metagenomic classification of long-read sequencing data
  ☆55Updated this week
• gbouras13 / plassembler
  Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
  ☆49Updated 4 months ago
• nf-core / bacass
  Simple bacterial assembly and annotation pipeline
  ☆60Updated this week