Alternatives and similar repositories for swarm

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

• tobiasgf / lulu
  r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)
  ☆67Updated last year
• mikemc / speedyseq
  Speedy versions of phyloseq functions
  ☆48Updated last year
• hsgweon / pipits
  Automated pipeline for analyses of fungal ITS from the Illumina
  ☆31Updated 2 months 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 4 months ago
• danknights / sourcetracker
  ☆76Updated last year
• schuyler-smith / phylosmith
  functions for analyzing phyloseq data
  ☆28Updated 5 months ago
• benjjneb / LRASManuscript
  Reproducible Analyses accompanying DADA2 + PacBio Manuscript
  ☆32Updated 4 years ago
• zoecastillo / microbiomeExplorer
  The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…
  ☆71Updated 2 years ago
• ggloor / CoDaSeq
  Functions for compositional analysis of high throughput sequencing
  ☆29Updated last year
• nextgenusfs / amptk
  AMPtk: Amplicon ToolKit for NGS data (formally UFITS)
  ☆38Updated last year
• Russel88 / DAtest
  Compare different differential abundance and expression methods
  ☆50Updated 3 years ago
• ddarriba / jmodeltest2
  Automatically exported from code.google.com/p/jmodeltest2
  ☆80Updated 3 years ago
• MadsAlbertsen / ampvis
  [deprecated] Please use ampvis2
  ☆8Updated 7 years ago
• agmcfarland / r_phylogenetics_worshop
  Using ggtree to build phylogenetic trees
  ☆47Updated 8 months ago
• sherrillmix / taxonomizr
  Parse NCBI taxonomy and accessions to find taxonomic assignments
  ☆77Updated 4 months ago
• yhwu / idemp
  Barcode demultiplex for Illumina I1, R1, R2 fastq.gz files
  ☆31Updated 8 years ago
• a-h-b / dadasnake
  Amplicon sequencing workflow heavily using DADA2 and implemented in snakemake
  ☆49Updated last year
• VascoElbrecht / JAMP
  JAMP - Just Another Metabarcoding Pipeline
  ☆36Updated 3 years ago
• terrimporter / CO1Classifier
  This repository contains CO1 reference sets that can be used with the RDP Classifier, BLAST, or SINTAX to classify COI metabarcode sequen…
  ☆32Updated 2 years ago
• eukref / pipeline
  EukRef curation pipeline
  ☆13Updated 4 years ago
• statdivlab / radEmu
  ☆56Updated this week
• Lagkouvardos / Rhea
  A set of R scripts for the analysis of microbial profiles
  ☆41Updated last year
• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆54Updated 3 years ago
• roblanf / sangeranalyseR
  functions to analyse sanger sequencing reads in R
  ☆101Updated 4 months ago
• snayfach / MicrobeCensus
  MicrobeCensus estimates the average genome size of microbial communities from metagenomic data
  ☆46Updated 5 years ago
• KasperSkytte / ampvis2
  Tools for visualising microbial community amplicon data
  ☆67Updated 3 months ago
• frederic-mahe / stampa
  Sequence Taxonomic Assignment by Massive Pairwise Alignments
  ☆14Updated 2 years ago
• Russel88 / MicEco
  Various functions for analysis of microbial community data
  ☆45Updated 2 years ago
• geronimp / graftM
  GraftM - Rapid community profiles from metagenomes
  ☆45Updated 11 months ago
• umerijaz / microbiomeSeq
  An R package for microbial community analysis in an environmental context
  ☆67Updated 4 years ago