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Metagenomic Analysis
Metagenomic Analysis
Access step-by-step guides to perform mNGS analysis.
Upload Data
Data File Requirements
Upload mNGS Illumina Data through the Web App
Quality Control
Sample QC
Background Models
Sample Report
Sample Report Table
Taxonomic Tree View
Filter Sample Report Table
Coverage Visualization
BLAST
Add Notes (Annotate Hits)
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Consensus Genome
Assemble Viral Consensus Genomes from Sample Report
Consensus Genome Quality Checks
Download Consensus Genome Data
Viral Consensus Genome Pipeline
Heatmap
Creating a Heatmap
Viewing Sample and Taxon Details in the Heatmap
Metadata in the Heatmap
Heatmap Analysis
Heatmap clustering
Saving and Downloading a Heatmap
Phylogenetic Tree
Building a Phylogenetic Tree
Interpreting a Phylogenetic Tree
Why a Pairwise Distance Matrix Instead of a Tree?
Phylogenetic Tree Pipeline for mNGS Samples
Nanopore Data
Upload Nanopore Data
Analyze Nanopore Data
Download Nanopore Data
Bulk Download
Initiate a Bulk Download
Keep Track of Downloads
Open Downloaded TAR.GZ Files
Download Via the Command Line
mNGS Pipeline
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Pipeline Update: NCBI Database Compression for mNGS Analysis
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CZ ID's Database Compression for mNGS Analysis
Pipeline Update: Human Read Filtering
mNGS Nanopore: Initial Pipeline Validation
Illumina Pipeline Details
Illumina Pipeline Update: Host and QC Filtering
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