Alternatives and similar repositories for phylosmith:

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

• mikemc / speedyseq
  Speedy versions of phyloseq functions
  ☆48Updated 11 months ago
• benjjneb / LRASManuscript
  Reproducible Analyses accompanying DADA2 + PacBio Manuscript
  ☆33Updated 4 years ago
• hildebra / lotus2
  Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
  ☆53Updated 3 months ago
• Russel88 / DAtest
  Compare different differential abundance and expression methods
  ☆51Updated 3 years ago
• microsud / microbiomeutilities
  The is mostly a wrapper tool using phyloseq and microbiome R packages.
  ☆34Updated 2 years ago
• ggloor / CoDaSeq
  Functions for compositional analysis of high throughput sequencing
  ☆29Updated last year
• Lagkouvardos / Rhea
  A set of R scripts for the analysis of microbial profiles
  ☆41Updated 10 months ago
• vmaffei / dada2_to_picrust
  Experimental pipeline to perform de novo PICRUSt on de-noised amplicon sequence variants (ASV)
  ☆19Updated 6 years ago
• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆53Updated 3 years ago
• mahendra-mariadassou / phyloseq-extended
  Various customs functions written to enhance the base functions of phyloseq. Most of them are used in the formation "Métagénomique 16S" p…
  ☆33Updated last month
• zoecastillo / microbiomeExplorer
  The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…
  ☆70Updated 2 years ago
• yhwu / idemp
  Barcode demultiplex for Illumina I1, R1, R2 fastq.gz files
  ☆31Updated 7 years ago
• vallenderlab / MicrobiomeR
  A comprehensive and customizable R package for microbiome analysis.
  ☆23Updated 2 years ago
• nextgenusfs / amptk
  AMPtk: Amplicon ToolKit for NGS data (formally UFITS)
  ☆38Updated last year
• shandley / Microbiome-Analysis-Using-R
  Microbiome Analysis Using R Workshop originally organized for the 2018 ASM General Meeting in Atlanta, GA, but regularly updated since.
  ☆27Updated 2 years ago
• vmikk / metagMisc
  Miscellaneous functions for metagenomic analysis.
  ☆49Updated 3 weeks ago
• statdivlab / radEmu
  ☆54Updated last week
• adw96 / DivNet
  diversity estimation under ecological networks
  ☆83Updated last year
• SchlossLab / schtools
  Schloss Lab Tools for Reproducible Microbiome Research 💩
  ☆31Updated last year
• arumugamlab / msamtools
  Metagenomics-related extended functionalities to samtools
  ☆21Updated last year
• KasperSkytte / ampvis2
  Tools for visualising microbial community amplicon data
  ☆67Updated 10 months ago
• GenomicsAotearoa / metagenomics_summer_school
  Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber
  ☆56Updated 7 months ago
• hsgweon / pipits
  Automated pipeline for analyses of fungal ITS from the Illumina
  ☆31Updated 7 months ago
• thomazbastiaanssen / Tjazi
  A microbiome analysis toolkit for R
  ☆22Updated last year
• knightlab-analyses / reference-frames
  ☆20Updated 4 years ago
• nhanhocu / metamicrobiomeR
  An R package for analysis of microbiome relative abundance data using zero inflated beta GAMLSS and meta-analysis across microbiome studi…
  ☆33Updated 4 years ago
• frederic-mahe / stampa
  Sequence Taxonomic Assignment by Massive Pairwise Alignments
  ☆14Updated last year
• frederic-mahe / swarm
  A robust and fast clustering method for amplicon-based studies
  ☆31Updated 2 years ago
• tobiasgf / lulu
  r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)
  ☆65Updated last year
• gavinmdouglas / POMS
  Phylogenetic Organization of Metagenomic Signals (POMS)
  ☆19Updated 2 years ago