KasperSkytte / ampvis2
Tools for visualising microbial community amplicon data
☆67Updated 6 months ago
Related projects ⓘ
Alternatives and complementary repositories for ampvis2
- 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
- A set of R scripts for the analysis of microbial profiles☆40Updated 6 months ago
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆38Updated last year
- Parse NCBI taxonomy and accessions to find taxonomic assignments☆70Updated 11 months ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆53Updated 2 months ago
- functions for analyzing phyloseq data☆26Updated 3 months ago
- A robust and fast clustering method for amplicon-based studies☆31Updated last year
- Speedy versions of phyloseq functions☆46Updated 7 months ago
- The is mostly a wrapper tool using phyloseq and microbiome R packages.☆33Updated last year
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆31Updated 4 years ago
- Compare different differential abundance and expression methods☆50Updated 2 years ago
- Statistical analysis for sparse high-throughput sequencing☆67Updated 8 months ago
- Various customs functions written to enhance the base functions of phyloseq. Most of them are used in the formation "Métagénomique 16S" p…☆33Updated last year
- Genome wide orthology inference and dNdS estimation☆88Updated last year
- R shiny app for interactive microbiome analysis☆52Updated 9 months ago
- Microbiome Analysis Using R Workshop originally organized for the 2018 ASM General Meeting in Atlanta, GA, but regularly updated since.☆27Updated 2 years ago
- r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)☆63Updated 11 months ago
- Experimental pipeline to perform de novo PICRUSt on de-noised amplicon sequence variants (ASV)☆19Updated 6 years ago
- Fantaxtic - Nested Bar Plots for Phyloseq Data☆26Updated 4 months ago
- Differential abundance (DA) and correlation analyses for microbial absolute abundance data☆108Updated last month
- Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles☆34Updated 7 months ago
- A microbiome analysis toolkit for R☆21Updated last year
- SHallow shOtGUN profiler☆54Updated 2 years ago
- Barcode demultiplex for Illumina I1, R1, R2 fastq.gz files☆31Updated 7 years ago
- A comprehensive and customizable R package for microbiome analysis.☆21Updated last year
- Tranform files to the microtable object in microeco package☆22Updated this week
- Miscellaneous functions for metagenomic analysis.☆46Updated 5 months ago
- Visualize microbiome data with black magic ggtree☆68Updated 4 years ago
- Automated pipeline for analyses of fungal ITS from the Illumina☆30Updated 3 months ago