Alternatives and similar repositories for greengenes2:

Users that are interested in greengenes2 are comparing it to the libraries listed below

• smangul1 / MiCoP
  MiCoP is a method for high-accuracy profiling of viral and fungal metagenomic communities.
  ☆15Updated 3 years ago
• metasnv-tool / metaSNV
  MetaSNV, a metagenomic SNV calling pipeline.
  ☆20Updated 3 years ago
• quadram-institute-bioscience / dadaist2
  Dadaist2 🟨 Highway to R
  ☆13Updated 2 months ago
• SegataLab / cmseq
  Set of utilities on sequences and BAM files
  ☆27Updated 3 years ago
• kevsilva / StrainFLAIR
  Strain-level abundances estimation in metagenomic samples using variation graphs
  ☆25Updated 2 years ago
• lozuponelab / AMON
  Annotation of Metabolite Origin via Networks: A tool for predicting putative metabolite origins for microbes or between microbes and host…
  ☆21Updated last year
• YuLab-SMU / MicrobiomeProfiler
  A shiny package for microbiome functional enrichment analysis
  ☆37Updated 3 weeks ago
• FEI38750 / MTD
  MTD: a unique pipeline for host and meta-transcriptome joint and integrative analyses of RNA-seq data
  ☆16Updated last year
• SwingOlive / kASA
  kASA - k-Mer Analysis of Sequences based on Amino acid-like encoding
  ☆23Updated last year
• SushiLab / omrgc_v2_scripts
  ☆11Updated last year
• ewissel / hAMRoaster
  hAMRoaster is an analysis pipeline that can compare the output of tools for detecting AMR genes and provide metrics of their performance
  ☆22Updated last year
• biobakery / shortbred
  ShortBRED is a pipeline to take a set of protein sequences, reduce them to a set of unique identifying strings ("markers"), and then sear…
  ☆28Updated 3 months ago
• 01life / ViromeFlowX
  ☆10Updated last year
• Shenhav-and-Korem-labs / SCRuB
  ☆29Updated 4 months ago
• katcoyte / MK-SpikeSeq
  Protocols, data and code associated with the MK-SpikeSeq method for quantifying the absolute abundances of microbiota samples
  ☆13Updated 3 years ago
• nf-core / pathogensurveillance
  Surveillance of pathogens using population genomics and sequencing
  ☆23Updated this week
• KoslickiLab / fmh-funprofiler
  A functional profiler for metagenomes using FracMinHash
  ☆16Updated 2 months ago
• Gibbons-Lab / mbtools
  R package for microbiome analysis. Provides helper functions for common workflows ranging from preprocessing to visualization.
  ☆23Updated last year
• KoslickiLab / YACHT-reproducibles
  A repo to reproduce the experiments in the YACHT manuscript
  ☆11Updated last year
• shihuang047 / re-benchmarking
  ☆15Updated 3 years ago
• gnanibioinfo / EzMAP
  ☆10Updated 4 years ago
• escamero / mirlyn
  ☆12Updated 8 months ago
• YDaiLab / MiMeNet
  ☆18Updated 4 years ago
• deweylab / detonate
  DETONATE: DE novo TranscriptOme rNa-seq Assembly with or without the Truth Evaluation
  ☆13Updated 8 years ago
• KasperSkytte / mmgenome2
  Tools for extracting individual genomes from metagenomes
  ☆17Updated last year
• davised / get_assemblies
  Download assembly files from NCBI
  ☆12Updated 2 years ago
• ZRChao / fastANCOM
  A fast method for analysis of composition of microbiomes
  ☆8Updated 3 years ago
• cmmr / Marker-MAGu
  Trans-Kingdom Marker Gene Pipeline for Taxonomic Profiling of Human Metagenomes
  ☆19Updated last year
• janepipistrelle / bacterial_GWAS_tutorial
  Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop
  ☆18Updated 9 years ago
• elizabethmcd / metabolisHMM
  Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs
  ☆18Updated 3 years ago