Alternatives and similar repositories for CAP2

Users that are interested in CAP2 are comparing it to the libraries listed below

• MetaSUB / MetaSUB_CAP
  A comprehensive pipeline for short read metagenomic data
  ☆24Updated 5 years ago
• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆54Updated 3 years ago
• Lagkouvardos / Rhea
  A set of R scripts for the analysis of microbial profiles
  ☆41Updated last year
• GenomicsAotearoa / metagenomics_summer_school
  Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber
  ☆63Updated 11 months ago
• Microbial-Ecology-Group / AMRplusplus
  AMR++ is a bioinformatic pipeline meant to aid in the analysis of raw sequencing reads to characterize the profile of antimicrobial resis…
  ☆39Updated last month
• MadsAlbertsen / mmgenome
  Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes
  ☆27Updated 8 years ago
• gjospin / PhyloSift
  Phylogenetic and taxonomic analysis for genomes and metagenomes
  ☆83Updated 9 years ago
• bhattlab / bhattlab_workflows
  Computational workflows for metagenomics tasks, by the Bhatt lab
  ☆47Updated 2 years ago
• microsud / microbiomeutilities
  The is mostly a wrapper tool using phyloseq and microbiome R packages.
  ☆34Updated 2 years ago
• snayfach / IGGdb
  Database of genomes integrated from the gut microbiome and other environments
  ☆45Updated 2 years ago
• EnvGen / metagenomics-workshop
  Metagenomics Workshop
  ☆28Updated 8 years ago
• janepipistrelle / bacterial_GWAS_tutorial
  Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop
  ☆18Updated 9 years ago
• metageni / SUPER-FOCUS
  A tool for agile functional analysis of shotgun metagenomic data
  ☆25Updated 11 months ago
• hildebra / lotus2
  Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
  ☆54Updated 2 months ago
• lozuponelab / SCNIC
  Sparse Cooccurence Network Investigation for Compositional data
  ☆24Updated 10 months ago
• ctmrbio / stag-mwc
  StaG Metagenomic Workflow Collaboration
  ☆29Updated last year
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆68Updated last week
• ToniWestbrook / paladin
  Protein Alignment and Detection Interface
  ☆61Updated last year
• elizabethmcd / metabolisHMM
  Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs
  ☆18Updated 3 years ago
• HCBravoLab / metagenomeSeq
  Statistical analysis for sparse high-throughput sequencing
  ☆69Updated 8 months ago
• flass / pantagruel
  a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
  ☆49Updated 2 years ago
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆29Updated 8 months ago
• dcdanko / MD2
  MicrobeDirectory 2.0
  ☆22Updated 5 years ago
• biobakery / melonnpan
  Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles
  ☆38Updated last year
• SegataLab / metamlst
  MetaMLST is a computational tool for in-silico Multi-Locus Sequence Typing from metagenomic data.
  ☆16Updated 2 years ago
• aomlomics / tourmaline
  Amplicon sequence processing workflow using QIIME 2 and Snakemake
  ☆47Updated 2 weeks ago
• PathoScope / PathoScope
  Pathoscope: Species identification and strain attribution with unassembled sequencing data
  ☆58Updated 6 years ago
• borenstein-lab / fishtaco
  FishTaco (Functional Shifts Taxonomic Contributors) is a metagenomic computational framework that aims to identify the driver taxa of mic…
  ☆24Updated 4 years ago
• christophertbrown / iRep
  scripts for estimating bacteria replication rates based on population genome copy number variation
  ☆73Updated 5 years ago
• statdivlab / radEmu
  ☆56Updated 3 weeks ago