HCBravoLab / metagenomeSeqLinks
Statistical analysis for sparse high-throughput sequencing
☆69Updated 5 months ago
Alternatives and similar repositories for metagenomeSeq
Users that are interested in metagenomeSeq are comparing it to the libraries listed below
Sorting:
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆57Updated last year
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆33Updated 4 years ago
- Analysis of metagenomic shotgun sequences including assembly, speciation, ARG discovery and more☆32Updated 2 years ago
- Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing☆119Updated last year
- Compare different differential abundance and expression methods☆51Updated 3 years ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆53Updated 4 months ago
- R implementation of the LEfSe method☆59Updated last month
- Visualize microbiome data with black magic ggtree☆68Updated 4 years ago
- SHallow shOtGUN profiler☆54Updated 3 years ago
- ☆23Updated 6 years ago
- Snakemake workflow for metagenomic classification with Kraken2☆65Updated last year
- Statistical Analysis of Metagenomic Profiles☆93Updated 5 years ago
- Rapid and scalable correlation estimation for compositional data☆87Updated last year
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆54Updated 3 years ago
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆73Updated 2 years ago
- Course material for the metagenomics course☆44Updated 3 years ago
- Computational workflows for metagenomics tasks, by the Bhatt lab☆47Updated 2 years ago
- The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…☆71Updated 2 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…☆63Updated 2 years ago
- Phylogenetic Investigation of Communities by Reconstruction of Unobserved STates (PICRUST): Official repository for software and unit tes…☆89Updated 2 years ago
- Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data☆157Updated 2 years ago
- This is the source code for multisamples ARGs profiling using SARG2.0 database☆47Updated 4 years ago
- Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2☆30Updated 5 years ago
- A set of R scripts for the analysis of microbial profiles☆41Updated last year
- r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)☆66Updated last year
- ☆56Updated last year
- Metatranscriptomics Tutorial☆62Updated last year
- Parse NCBI taxonomy and accessions to find taxonomic assignments☆74Updated 2 months ago
- A tutorial on methods of 16S analysis with QIIME 1☆69Updated 5 years ago
- ☆74Updated last year