pnnl / hundo
Snakemake-based amplicon processing protocol for 16S and ITS sequences.
β14Updated 6 months ago
Related projects: β
- Schloss Lab Tools for Reproducible Microbiome Research π©β28Updated last year
- Modular snakemake workflow for assembly-based metagenomicsβ10Updated 7 years ago
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)β38Updated 10 months ago
- A comprehensive and customizable R package for microbiome analysis.β20Updated last year
- Handy tools for Microbiome analysis in Rβ18Updated 5 years ago
- Maximum Likelihood Amplicon Pipelineβ22Updated 3 months ago
- Amplicon sequence processing workflow using QIIME 2 and Snakemakeβ42Updated last week
- FishTaco (Functional Shifts Taxonomic Contributors) is a metagenomic computational framework that aims to identify the driver taxa of micβ¦β23Updated 3 years ago
- Annotation of Metabolite Origin via Networks: A tool for predicting putative metabolite origins for microbes or between microbes and hostβ¦β21Updated 5 months ago
- FAST is an Amplicon Sequencing Toolbox v1.2β9Updated 6 years ago
- Repository for R package MetQy (read related publication here: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6247936/)β18Updated 2 years ago
- β26Updated 6 months ago
- Tools for extracting individual genomes from metagenomesβ17Updated 9 months ago
- An R package for analysis of microbiome relative abundance data using zero inflated beta GAMLSS and meta-analysis across microbiome studiβ¦β33Updated 3 years ago
- Metagenomic species profiling with enhanced coverage of the human gut microbiomeβ24Updated 4 months ago
- Repository of the integrated mouse gut metagenomic catalogβ20Updated 2 years ago
- β35Updated 6 years ago
- Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBIβ29Updated 5 years ago
- HPC pipeline for overlapping V4 16S rRNA reads generated on Illumina MiSeqβ11Updated 9 years ago
- Extract lineage CSVs from NCBI for use with sourmash lca.β26Updated 11 months ago
- akutils with massive updates over v1.1 to functionality and command line interface.β15Updated 5 years ago
- β13Updated 11 months ago
- Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profilesβ33Updated 5 months ago
- A Shotgun Metagenome Annotation Pipelineβ23Updated 7 years ago
- Advanced metagenomic Sequence Analysis in Rβ15Updated 6 years ago
- 16S taxonomy assignment using an ecosystem-specific database.β15Updated last year
- A set of R functions that help faciliate a lot of tedious processingβ18Updated 6 years ago
- Protocols, data and code associated with the MK-SpikeSeq method for quantifying the absolute abundances of microbiota samplesβ12Updated 3 years ago
- Strain Prediction and Analysis with Representative SEquenceβ18Updated this week
- Fungal Genome Mapping Pipelineβ18Updated 5 years ago