Alternatives and similar repositories for DeepMicrobes

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

• bhattlab / kraken2_classification
  Snakemake workflow for metagenomic classification with Kraken2
  ☆66Updated 2 years ago
• CompSynBioLab-KoreaUniv / FunGAP
  FunGAP: fungal Genome Annotation Pipeline
  ☆111Updated 7 months ago
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆61Updated last year
• broadinstitute / catch
  A package for designing compact and comprehensive capture probe sets.
  ☆92Updated last year
• paulstothard / cgview
  CGView is a Java package for generating high-quality, zoomable maps of circular genomes.
  ☆50Updated last year
• AstrobioMike / bit
  Bioinformatics Tools
  ☆90Updated this week
• EBI-Metagenomics / genomes-catalogue-pipeline
  MGnify genome analysis pipeline
  ☆108Updated last week
• ablab / viralVerify
  viralVerify: viral contig verification tool
  ☆73Updated 4 years ago
• fanglab / nanodisco
  nanodisco: a toolbox for discovering and exploiting multiple types of DNA methylation from individual bacteria and microbiomes using nano…
  ☆72Updated 3 years ago
• art-egorov / lovis4u
  Bioinformatics tool for Locus Visualisation
  ☆157Updated 2 months ago
• Mykrobe-tools / mykrobe
  Antibiotic resistance prediction in minutes
  ☆112Updated last year
• BinPro / CONCOCT
  Clustering cONtigs with COverage and ComposiTion
  ☆135Updated 5 years ago
• EBI-Metagenomics / emg-viral-pipeline
  VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies
  ☆145Updated last month
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆124Updated 2 years ago
• DessimozLab / read2tree
  a tool for inferring species tree from sequencing reads
  ☆156Updated last month
• nick-youngblut / gtdb_to_taxdump
  Convert GTDB taxonomy to NCBI taxdump format
  ☆73Updated 2 years ago
• snayfach / MGV
  Supporting code for uncultivated gut virus manuscript
  ☆78Updated 2 years ago
• neherlab / pan-genome-analysis
  Processing pipeline for pan-genome visulization and exploration
  ☆143Updated 2 years ago
• cruizperez / MicrobeAnnotator
  Pipeline for metabolic annotation of microbial genomes
  ☆150Updated 10 months ago
• MrOlm / inStrain
  Bioinformatics program inStrain
  ☆181Updated 8 months ago
• sanger-pathogens / pathogen-informatics-training
  ☆76Updated 5 years ago
• motu-tool / mOTUs
  motus - a tool for marker gene-based OTU (mOTU) profiling
  ☆166Updated last month
• bjtully / BioData
  All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")
  ☆80Updated 2 years ago
• biobakery / MetaPhlAn2
  ☆34Updated 5 years ago
• BenLangmead / aws-indexes
  Catalog of genomic indexes freely available from public clouds
  ☆65Updated last week
• husonlab / megan-ce
  MEGAN Community Edition
  ☆72Updated last year
• eead-csic-compbio / get_homologues
  GET_HOMOLOGUES: a versatile software package for pan-genome analysis
  ☆123Updated last week
• epi2me-labs / wf-metagenomics
  Metagenomic classification of long-read sequencing data
  ☆98Updated last month
• qiyunzhu / woltka
  Woltka: a versatile meta'omic data classifier
  ☆76Updated 4 months ago
• urmi-21 / orfipy
  Fast and flexible ORF finder
  ☆76Updated 4 years ago