Workflows

This workflow allows for genome annotation using Maker and evaluates the quality of the annotation.

This workflow runs the FEELnc tool to annotate long non-coding RNAs. Before annotating these long non-coding RNAs, StringTie will be used to assemble the RNA-seq alignments into potential trancriptions. The gffread tool provides a genome annotation file in GTF format.

This workflow shows Flexynesis usage for predicting survival markers from a multi-omics dataset

Associated Tutorial

This workflows is part of the tutorial Identifing Survival Markers of Brain tumor with Flexynesis, available in the GTN

Features

• Includes Galaxy Workflow Tests ...

This WF applies Flexynesis on BRCA data from Metabric for a classification task

Associated Tutorial

This workflows is part of the tutorial Modeling Breast Cancer Subtypes with Flexynesis, available in the GTN

Features

• Includes Galaxy Workflow Tests ...

Classification and visualization of ITS regions.

Associated Tutorial

This workflows is part of the tutorial MGnify v5.0 Amplicon Pipeline, available in the GTN

Features

• Includes a Galaxy Workflow Report
• Uses ...

The MAPseq to Ampvis workflow processes MAPseq OTU tables and associated metadata for analysis in Ampvis2. This workflow involves reformatting MAPseq output datasets to produce structured output files suitable for Ampvis2.

Associated Tutorial

This workflows is part of the tutorial MGnify v5.0 Amplicon Pipeline, available in the GTN

Features

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Quality control subworkflow for paired-end reads.

Associated Tutorial

This workflows is part of the tutorial MGnify v5.0 Amplicon Pipeline, available in the GTN

Features

• Includes a Galaxy Workflow Report

Thanks to...

Workflow Author(s): ...

MGnify's amplicon pipeline v5.0. Including the Quality control for single-end and paired-end reads, rRNA-prediction, and ITS sub-WFs.

Associated Tutorial

This workflows is part of the tutorial MGnify v5.0 Amplicon Pipeline, available in the GTN

Features

• Includes a Galaxy Workflow Report ...

Unsupervised Classification of Bone marrow cells

Associated Tutorial

This workflows is part of the tutorial Unsupervised Analysis of Bone Marrow Cells with Flexynesis, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Includes a ...

This workflow creates taxonomic summary tables out of the amplicon pipeline results.

Associated Tutorial

This workflows is part of the tutorial MGnify v5.0 Amplicon Pipeline, available in the GTN

Features

• Includes a Galaxy Workflow Report
• Uses ...