MadsAlbertsen / ampvis

Related projects ⓘ

Alternatives and complementary repositories for ampvis

• tobiasgf / lulu
  r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)
  ☆63Updated 10 months ago
• frederic-mahe / swarm
  A robust and fast clustering method for amplicon-based studies
  ☆31Updated last year
• Lagkouvardos / Rhea
  A set of R scripts for the analysis of microbial profiles
  ☆40Updated 5 months 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…
  ☆31Updated last year
• microUCPH / amplicon_data_analysis
  Collection of notebooks describing the basic analysis workflow for a 16S rRNA gene amplicon sequencing project
  ☆11Updated 2 years ago
• benjjneb / LRASManuscript
  Reproducible Analyses accompanying DADA2 + PacBio Manuscript
  ☆30Updated 4 years ago
• MadsAlbertsen / multi-metagenome
  Scripts and tutorials on how to assemble individual microbial genomes from metagenomes
  ☆80Updated 8 years ago
• hsgweon / pipits
  Automated pipeline for analyses of fungal ITS from the Illumina
  ☆30Updated 2 months ago
• snayfach / MicrobeCensus
  MicrobeCensus estimates the average genome size of microbial communities from metagenomic data
  ☆43Updated 4 years ago
• Russel88 / DAtest
  Compare different differential abundance and expression methods
  ☆50Updated 2 years ago
• mikemc / speedyseq
  Speedy versions of phyloseq functions
  ☆46Updated 6 months ago
• zoecastillo / microbiomeExplorer
  The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…
  ☆69Updated 2 years ago
• nextgenusfs / amptk
  AMPtk: Amplicon ToolKit for NGS data (formally UFITS)
  ☆38Updated 11 months ago
• DeniRibicic / q2ONT
  Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2
  ☆27Updated 4 years ago
• qichao1984 / NCyc
  ☆46Updated 3 years ago
• WatsonLab / MAGpy
  Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)
  ☆62Updated last year
• eukref / pipeline
  EukRef curation pipeline
  ☆13Updated 3 years ago
• statdivlab / radEmu
  ☆50Updated 2 weeks ago
• ErnakovichLab / dada2_ernakovichlab
  ☆13Updated this week
• 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 11 months ago
• gmteunisse / fantaxtic
  Fantaxtic - Nested Bar Plots for Phyloseq Data
  ☆26Updated 3 months ago
• 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
• mikerobeson / make_SILVA_db
  General procedure for making QIIME 2 compatible SILVA reference files
  ☆20Updated last month
• richardmleggett / MARTi
  Metagenomic Analysis in Real Time
  ☆18Updated this week
• agmcfarland / r_phylogenetics_worshop
  Using ggtree to build phylogenetic trees
  ☆45Updated this week
• edamame-course / Metagenome
  ☆23Updated 6 years ago
• jcmcnch / eASV-pipeline-for-515Y-926R
  This is a collection of scripts for analyzing mixed 16S/18S amplicon sequences using tools such as qiime2, DADA2, deblur, and bbtools
  ☆28Updated 3 months ago
• aomlomics / tourmaline
  Amplicon sequence processing workflow using QIIME 2 and Snakemake
  ☆42Updated this week
• frederic-mahe / stampa
  Sequence Taxonomic Assignment by Massive Pairwise Alignments
  ☆14Updated last year