Alternatives and similar repositories for PROTAX-GPU

Users that are interested in PROTAX-GPU are comparing it to the libraries listed below

• hariszaf / pema
  PEMA: a flexible Pipeline for Environmental DNA Metabarcoding Analysis of the 16S/18S rRNA, ITS and COI marker genes
  ☆32Updated 2 weeks ago
• metabaRfactory / metabaR
  metabaR is an R package to curate and visualise DNA metabarcoding data after basic bioinformatics analyses.
  ☆17Updated 6 months ago
• frederic-mahe / stampa
  Sequence Taxonomic Assignment by Massive Pairwise Alignments
  ☆14Updated 2 years ago
• ukaraoz / microtrait
  ☆47Updated last year
• MathiasEskildsen / ONT-AmpSeq
  Snakemake workflow to generate OTU tables from barcoded ONT data
  ☆18Updated last year
• tobiasgf / lulu
  r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)
  ☆72Updated 2 years ago
• gjeunen / reference_database_creator
  creating reference databases for amplicon sequencing
  ☆48Updated last month
• vuthuyduong / dnabarcoder
  ☆17Updated last week
• nextgenusfs / amptk
  AMPtk: Amplicon ToolKit for NGS data (formally UFITS)
  ☆39Updated 2 years ago
• schuyler-smith / phylosmith
  functions for analyzing phyloseq data
  ☆28Updated last year
• adrientaudiere / MiscMetabar
  R package MiscMetabar: Miscellaneous functions for metabarcoding analysis
  ☆19Updated last week
• asrivathsan / ONTbarcoder
  ☆31Updated last year
• mahsa-mousavi / eDNAFlow
  ☆22Updated 2 years ago
• brendanf / FUNGuildR
  Look Up Guild Information for Fungi in R
  ☆23Updated 10 months ago
• frederic-mahe / swarm
  A robust and fast clustering method for amplicon-based studies
  ☆31Updated 2 years ago
• donaldtmcknight / microDecon
  An R package for removing contamination from metabarcoding (e.g., microbiome) datasets post-sequencing
  ☆21Updated 2 years ago
• Pas-Kapli / mptp
  mPTP - a tool for single-locus species delimitation
  ☆30Updated 2 years ago
• gtonkinhill / fastbaps
  A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data
  ☆68Updated 3 years ago
• aomlomics / mitohelper
  Mitohelper: a mitochondrial reference sequence analysis tool for fish eDNA studies
  ☆21Updated 2 months ago
• microbiome / miaSim
  microbiome data simulation package
  ☆22Updated 4 months ago
• hsgweon / pipits
  Automated pipeline for analyses of fungal ITS from the Illumina
  ☆32Updated 9 months ago
• metashot / prok-quality
  Assessing the quality of prokaryotic genomes, filtering and dereplication
  ☆11Updated 3 years ago
• xavierdidelot / BactDating
  Bayesian inference of ancestral dates on bacterial phylogenetic trees
  ☆94Updated 2 months ago
• andrewjpage / tiptoft
  Predict plasmids from uncorrected long read data
  ☆41Updated 3 months ago
• richardmleggett / MARTi
  Metagenomic Analysis in Real Time
  ☆29Updated 2 months ago
• Arcadia-Science / sourmashconsumr
  Working with the outputs of sourmash in R
  ☆28Updated 3 weeks ago
• pr2database / pr2database
  Protist Ribosomal Reference database (PR2) - SSU rRNA gene database
  ☆85Updated 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 3 months ago
• minoh0201 / MetaCompare
  MetaCompare
  ☆19Updated last year
• terrimporter / CO1Classifier
  This repository contains CO1 reference sets that can be used with the RDP Classifier, BLAST, or SINTAX to classify COI metabarcode sequen…
  ☆33Updated 2 years ago