farhadm1990 / 16S-rRNA-amplicon
Analysis of (gut) microbiome in Qiime2 and R.
☆17Updated 5 months ago
Alternatives and similar repositories for 16S-rRNA-amplicon:
Users that are interested in 16S-rRNA-amplicon are comparing it to the libraries listed below
- ☆12Updated 3 years ago
- 16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Demo: https://ycl6.github.io/16S-Demo…☆33Updated 3 years ago
- Analysis of metagenomic shotgun sequences including assembly, speciation, ARG discovery and more☆27Updated last year
- ☆55Updated 11 months ago
- Compare different differential abundance and expression methods☆51Updated 2 years ago
- R implementation of the LEfSe method☆55Updated this week
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆54Updated last month
- Microbiome Analysis Using R Workshop originally organized for the 2018 ASM General Meeting in Atlanta, GA, but regularly updated since.☆27Updated 2 years ago
- A general metagenomics data mining system focus on robust microbiome research☆56Updated 5 months ago
- Microbiome Projects from the Department of Genetics and Department of Gastroenterology and Hepatology , University Medical Centre Groning…☆57Updated 5 months ago
- Scripts for stat and plot figures in rice microbiome paper☆19Updated 5 years ago
- Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing☆115Updated 9 months ago
- Course material for the metagenomics course☆43Updated 2 years ago
- Scripts for stat and plot figures in rice microbiome paper☆31Updated 4 months ago
- The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…☆70Updated 2 years ago
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆52Updated 2 years ago
- The is mostly a wrapper tool using phyloseq and microbiome R packages.☆34Updated 2 years ago
- ☆16Updated last year
- Code and analysis results for the CRC shotgun meta-analysis☆38Updated 2 years ago
- A microbiome analysis toolkit for R☆21Updated last year
- Visualize microbiome data with black magic ggtree☆68Updated 4 years ago
- Archive: R functions for Analysis of Composition of Microbiomes (ANCOM). Please check our ANCOMBC R package for the most up-to-date ANCOM…☆60Updated 2 years ago
- Metagenomics Workshop☆28Updated 8 years ago
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆31Updated 4 years ago
- Data, scripts, and lectures for the Introduction to Metagenomics Summer Workshop 2019.☆32Updated 5 years ago
- Repository of common bioinformatics scripts☆39Updated 3 years ago
- Statistical analysis for sparse high-throughput sequencing☆69Updated 2 months ago
- ☆21Updated 4 years ago
- Pipeline & Reproducible analysis examples for amplicon and metagenome in microbiome☆39Updated 4 years ago
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆57Updated 10 months ago