Alternatives and similar repositories for VAPiD

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

• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆45Updated 5 years ago
• mtisza1 / Cenote-Taker2
  Cenote-Taker2: Discover and Annotate Divergent Viral Contigs (Please use Cenote-Taker 3 instead)
  ☆56Updated last year
• Shamir-Lab / Recycler
  This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…
  ☆58Updated 4 years ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆65Updated 3 years ago
• Finn-Lab / MGS-gut
  Analysing Metagenomic Species (MGS)
  ☆41Updated 4 years ago
• katholt / RedDog
  ☆37Updated 3 years ago
• marbl / MetaCompass
  MetaCompass: Reference-guided Assembly of Metagenomes
  ☆38Updated last month
• vrmarcelino / CCMetagen
  Microbiome classification pipeline
  ☆65Updated 4 months ago
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆69Updated 4 years ago
• Serka-M / Digester-MultiSequencing
  Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing
  ☆21Updated 2 years ago
• ddarriba / prottest3
  Automatically exported from code.google.com/p/prottest3
  ☆37Updated 7 years ago
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆56Updated last year
• fanglab / mbin
  mBin: a methylation-based binning framework for metagenomic SMRT sequencing reads
  ☆25Updated 2 years ago
• WatsonLab / MAGpy
  Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)
  ☆62Updated 2 years ago
• infspiredBAT / Circoletto
  visualising sequence similarity with Circos
  ☆41Updated 6 years ago
• SegataLab / panphlan
  PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples
  ☆44Updated last year
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆76Updated 3 years ago
• jts / assembly_accuracy
  tools for assessing the accuracy of genome assemblies
  ☆34Updated last year
• leylabmpi / Struo
  Ley Lab MetaGenome Profiler DataBase generator
  ☆49Updated 2 years ago
• FOI-Bioinformatics / flextaxd
  FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomi…
  ☆67Updated 6 months ago
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆51Updated 8 months ago
• marbl / harvest
  ☆53Updated 4 years ago
• bobeobibo / phigaro
  Phigaro is a scalable command-line tool for predicting phages and prophages
  ☆52Updated last year
• sanger-pathogens / iva
  de novo virus assembler of Illumina paired reads
  ☆56Updated 4 years ago
• chmccarthy / Pangloss
  Pangenome analysis of eukaryotes.
  ☆19Updated 5 years ago
• xiaoli-dong / metaerg
  ☆40Updated 4 years ago
• oschwengers / asap
  A scalable bacterial genome assembly, annotation and analysis pipeline
  ☆74Updated last year
• GreyGuoweiChen / VirBot
  VirBot: a protein-based RNA virus detector for metagenomic data
  ☆34Updated last year
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆76Updated 2 weeks ago
• christophertbrown / iRep
  scripts for estimating bacteria replication rates based on population genome copy number variation
  ☆72Updated 5 years ago