Alternatives and similar repositories for MetaPhlAn2

Users that are interested in MetaPhlAn2 are comparing it to the libraries listed below

• bhattlab / kraken2_classification
  Snakemake workflow for metagenomic classification with Kraken2
  ☆67Updated 2 years ago
• ohmeta / metapi
  A general metagenomics data mining system focus on robust microbiome research
  ☆58Updated last week
• grimmlab / MicrobiomeBestPracticeReview
  Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing
  ☆123Updated last year
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆61Updated last year
• victoriapascal / gutsmash
  gutSMASH
  ☆57Updated 4 months ago
• HCBravoLab / metagenomeSeq
  Statistical analysis for sparse high-throughput sequencing
  ☆71Updated last year
• hzi-bifo / RiboDetector
  Accurate and rapid RiboRNA sequences Detector based on deep learning
  ☆119Updated this week
• nearinj / Comparison_of_DA_microbiome_methods
  ☆58Updated last year
• PacificBiosciences / HiFi-16S-workflow
  Nextflow pipeline to analyze PacBio HiFi full-length 16S data
  ☆92Updated 7 months ago
• husonlab / megan-ce
  MEGAN Community Edition
  ☆72Updated last year
• scwatts / fastspar
  Rapid and scalable correlation estimation for compositional data
  ☆97Updated last year
• bjtully / BioData
  All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")
  ☆81Updated 2 years ago
• nmquijada / tormes
  Making whole bacterial genome sequencing data analysis easy
  ☆113Updated 9 months ago
• AstrobioMike / bit
  Bioinformatics Tools
  ☆90Updated this week
• bhattlab / bhattlab_workflows
  Computational workflows for metagenomics tasks, by the Bhatt lab
  ☆47Updated 3 years ago
• karkman / MetagenomeCourse2019
  Course material for the metagenomics course
  ☆47Updated 3 years ago
• EnvGen / metagenomics-workshop
  Metagenomics Workshop
  ☆27Updated 9 years ago
• microgenomics / tutorials
  In this repo you will find demos and tutorials prepared by members of the CBIB. Feel free to use them for non-commercial activities given…
  ☆84Updated 7 years ago
• smdabdoub / kraken-biom
  Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…
  ☆57Updated 3 years ago
• bokulich-lab / RESCRIPt
  REference Sequence annotation and CuRatIon Pipeline
  ☆98Updated this week
• ParkinsonLab / Metatranscriptome-Workshop
  Metatranscriptomics Tutorial
  ☆66Updated 2 years ago
• Sydney-Informatics-Hub / Shotgun-Metagenomics-Analysis
  Analysis of metagenomic shotgun sequences including assembly, speciation, ARG discovery and more
  ☆36Updated 2 years ago
• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆53Updated 3 years ago
• GenomicsAotearoa / metagenomics_summer_school
  Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber
  ☆67Updated last year
• donovan-h-parks / STAMP
  Statistical Analysis of Metagenomic Profiles
  ☆94Updated 2 weeks ago
• nf-core / bacass
  Simple bacterial assembly and annotation pipeline
  ☆81Updated 2 weeks ago
• nvelden / geneviewer
  An R package designed for drawing gene arrow maps
  ☆95Updated 4 months ago
• Zymo-Research / figaro
  An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters
  ☆96Updated last year
• nf-core / funcscan
  (Meta-)genome screening for functional and natural product gene sequences
  ☆101Updated last week
• biobakery / maaslin3
  MaAsLin3: Microbiome Multivariate Association with Linear Models
  ☆67Updated this week