Alternatives and similar repositories for JAMP:

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

• uit-metabarcoding / MJOLNIR
  MJOLNIR Metabarcoding Joining Obitools & Linkage Networks In R
  ☆18Updated 8 months ago
• metabaRfactory / metabaR
  metabaR is an R package to curate and visualise DNA metabarcoding data after basic bioinformatics analyses.
  ☆14Updated last month
• Russel88 / MicEco
  Various functions for analysis of microbial community data
  ☆43Updated 2 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 2 weeks ago
• brendanf / FUNGuildR
  Look Up Guild Information for Fungi in R
  ☆21Updated last year
• GuillemSalazar / EcolUtils
  Utilities for community ecology analysis
  ☆18Updated 4 years ago
• frederic-mahe / swarm
  A robust and fast clustering method for amplicon-based studies
  ☆31Updated last year
• TillMacher / TaxonTableTools
  TaxonTableTools - A comprehensive, platform-independent graphical user interface software to explore and visualise DNA metabarcoding data
  ☆21Updated 2 years ago
• frederic-mahe / stampa
  Sequence Taxonomic Assignment by Massive Pairwise Alignments
  ☆14Updated last year
• yoann-dufresne / SLIM
  A web app for environmental DNA metabarcoding analysis
  ☆10Updated 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 last year
• HullUni-bioinformatics / metaBEAT
  Metabarcoding analyses pipeline - metaBarcoding and Environmental DNA Analysis Tool
  ☆19Updated 5 years ago
• tobiasgf / lulu
  r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)
  ☆64Updated last year
• MadsAlbertsen / ampvis
  [deprecated] Please use ampvis2
  ☆8Updated 7 years ago
• yhwu / idemp
  Barcode demultiplex for Illumina I1, R1, R2 fastq.gz files
  ☆31Updated 7 years ago
• rogotoh / PMiFish
  ☆12Updated last year
• bensutherland / eDNA_metabarcoding
  Pipeline to analyze eDNA metabarcoding samples (PE and SE, demultiplexed, multiplexed)
  ☆12Updated 2 years ago
• DominikBuchner / BOLDigger
  A python package to query different databases of boldsystems.org
  ☆30Updated 4 months ago
• VascoElbrecht / PrimerMiner
  R mased batch sequence downloader, with primer development and in silico evaluation capabilities
  ☆33Updated 4 months ago
• defleury / Schmidt_et_al_2016_community_similarity
  Analysis code for a manuscript on community similarity computation
  ☆14Updated 5 years ago
• lmcai / PhyloHerb
  PHYLOgenomic analysis pipeline for HERBarium specimens
  ☆17Updated last year
• vmikk / metagMisc
  Miscellaneous functions for metagenomic analysis.
  ☆49Updated last month
• donaldtmcknight / microDecon
  An R package for removing contamination from metabarcoding (e.g., microbiome) datasets post-sequencing
  ☆15Updated last year
• blackrim / treePL
  Phylogenetic penalized likelihood
  ☆47Updated 7 months ago
• gmteunisse / fantaxtic
  Fantaxtic - Nested Bar Plots for Phyloseq Data
  ☆29Updated 8 months ago
• gjeunen / reference_database_creator
  creating reference databases for amplicon sequencing
  ☆34Updated this week
• simon-ho / SydneyPhyloWorkshop
  Sydney Phylogenetics Workshop
  ☆63Updated 2 months ago
• bulksoil / BioProtocol
  Repo for a Microbiome Protocol
  ☆9Updated 6 years ago
• gauravsk / ranacapa
  R package for downstream analysis for anacapa eDNA pipeline
  ☆23Updated 3 years ago
• mahsa-mousavi / eDNAFlow
  ☆20Updated 2 years ago