U.S. Department of Health & Human Services
National Institutes of Health
National Institute of Allergy & Infectious Diseases
bioinformatics @NIAID
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U.S. Department of Health & Human Services
National Institutes of Health
National Institute of Allergy & Infectious Diseases
bioinformatics @NIAID
Nephele: Microbiome Analysis
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Nephele User Guide
Getting Started
About Nephele Pipelines
Pipeline Descriptions
Test Datasets
FAQ
Pipeline Descriptions
Here are links to detailed descriptions of the workflow steps and tools used for each pipeline.
PRE-PROCESS
Short read QC
Nanopore QC
ANALYZE
mothur
DADA2
DADA2 ITS
QIIME2
bioBakery WGS
WGSA2
SARS-CoV-2
EXPLORE
Downstream Analysis
Metagenomics Inference PICRUSt2
DiscoVir
VISUALIZATION
Visualization Details