hildebra / lotus2
Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
☆54Updated last month
Alternatives and similar repositories for lotus2:
Users that are interested in lotus2 are comparing it to the libraries listed below
- A microbiome analysis toolkit for R☆21Updated last year
- Compare different differential abundance and expression methods☆51Updated 2 years ago
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆31Updated 4 years ago
- Metagenomics-related extended functionalities to samtools☆20Updated last year
- 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
- R implementation of the LEfSe method☆55Updated this week
- Collection of notebooks describing the basic analysis workflow for a 16S rRNA gene amplicon sequencing project☆11Updated 2 years ago
- ☆52Updated last week
- A set of R scripts for the analysis of microbial profiles☆42Updated 9 months ago
- Transform files to the microtable object with microeco package☆24Updated 2 months ago
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆54Updated 5 months ago
- Data, scripts, and lectures for the Introduction to Metagenomics Summer Workshop 2019.☆32Updated 5 years ago
- Functions for compositional analysis of high throughput sequencing☆29Updated last year
- An R package designed for drawing gene arrow maps☆43Updated this week
- The is mostly a wrapper tool using phyloseq and microbiome R packages.☆34Updated 2 years ago
- functions for analyzing phyloseq data☆26Updated 2 weeks ago
- Analysis of metagenomic shotgun sequences including assembly, speciation, ARG discovery and more☆27Updated last year
- 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
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated last year
- Metagenomics Workshop☆28Updated 8 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
- SHallow shOtGUN profiler☆54Updated 2 years ago
- Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat☆37Updated this week
- Batch effects removal for microbiome data via conditional quantile regression☆27Updated 2 years ago
- ☆48Updated 10 months ago
- ☆26Updated last year
- Archive: Data, scripts, and outputs for the Nat. Comm. paper "Analysis of Composition of Microbiomes with Bias Correction". Please check …☆30Updated 4 years ago
- gutSMASH☆53Updated 2 months ago
- Sparse Cooccurence Network Investigation for Compositional data☆24Updated 3 months ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆43Updated 4 years ago