mikemc / speedyseqLinks
Speedy versions of phyloseq functions
☆48Updated last year
Alternatives and similar repositories for speedyseq
Users that are interested in speedyseq are comparing it to the libraries listed below
Sorting:
- The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…☆72Updated 3 years ago
- Miscellaneous functions for metagenomic analysis.☆53Updated last month
- Compare different differential abundance and expression methods☆52Updated 3 years ago
- Functions for compositional analysis of high throughput sequencing☆29Updated 2 years ago
- A set of R scripts for the analysis of microbial profiles☆41Updated 3 weeks ago
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆39Updated 2 years ago
- r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)☆72Updated 2 years ago
- functions for analyzing phyloseq data☆28Updated last year
- A robust and fast clustering method for amplicon-based studies☆31Updated 2 years ago
- power estimation for microbiome studies analyzed with pairwise distances and PERMANOVA☆39Updated 10 years ago
- diversity estimation under ecological networks☆83Updated 6 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 3 months ago
- Parse NCBI taxonomy and accessions to find taxonomic assignments☆78Updated 6 months ago
- Tools for visualising microbial community amplicon data☆71Updated 3 months ago
- Amplicon sequencing workflow heavily using DADA2 and implemented in snakemake☆50Updated last year
- ☆63Updated last month
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆55Updated 7 months ago
- Phylogenetic Organization of Metagenomic Signals (POMS)☆18Updated 3 years ago
- 16S taxonomy assignment using an ecosystem-specific database.☆17Updated 2 years ago
- Semi-parametric Rank-Based Correlation and Partial Correlation Estimation for Quantitative Microbiome Data☆23Updated 3 years ago
- ☆18Updated 3 years ago
- Fantaxtic - Nested Bar Plots for Phyloseq Data☆33Updated last year
- 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
- A microbiome analysis toolkit for R☆25Updated 2 years ago
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆34Updated 5 years ago
- ☆20Updated 5 years ago
- Microbiome Analysis Using R Workshop originally organized for the 2018 ASM General Meeting in Atlanta, GA, but regularly updated since.☆27Updated 3 years ago
- Amplicon sequence processing workflow using QIIME 2 and Snakemake☆45Updated last month
- Implementation of CoNet in R☆16Updated 6 years ago
- Experimental pipeline to perform de novo PICRUSt on de-noised amplicon sequence variants (ASV)☆19Updated 7 years ago