Workflows

Prediction of HLA binding for verified candidates

Associated Tutorial

This workflows is part of the tutorial Neoantigen 5a: Predicting HLA Binding, available in the GTN

Features

• Includes a Galaxy Workflow Report

Thanks to...

...

Merging Fusion and non-normal databases + Discovery peptidomics using FragPipe

Associated Tutorial

This workflows is part of the tutorial Neoantigen 2: Database merge and FragPipe discovery, available in the GTN

Features

• Includes a Galaxy Workflow Report ...

Create a protein Fusion database through the Arriba workflow

Associated Tutorial

This workflows is part of the tutorial Neoantigen 1a: Fusion-Database-Generation, available in the GTN

Features

• Includes a Galaxy Workflow Report ...

Validate the NeoAntigen Candidates from FragPipe discovery through the PepQuery Novel search

Associated Tutorial

This workflows is part of the tutorial Neoantigen 3: PepQuery2 Verification, available in the GTN

Features

• Includes a Galaxy Workflow Report ...

Annotating the novel peptides

Associated Tutorial

This workflows is part of the tutorial Neoantigen 4: Variant Annotation, available in the GTN

Features

• Includes a Galaxy Workflow Report

Thanks to...

Workflow Author(s): GalaxyP ...

Predict binding using IEDB and check novelty peptides with PepQuery

Associated Tutorial

This workflows is part of the tutorial Neoantigen 5b: IEDB binding PepQuery Validated Neopeptides, available in the GTN

Features

• Includes a Galaxy Workflow Report ...

Generating non-reference protein database for FragPipe discovery

Associated Tutorial

This workflows is part of the tutorial Neoantigen 1b: Non-Reference-Database-Generation, available in the GTN

Features

• Includes a Galaxy Workflow Report ...

Pathogens of all samples report generation and visualization

Associated Tutorial

This workflows is part of the tutorial Pathogen detection from (direct Nanopore) sequencing data using Galaxy - Foodborne Edition, available in the GTN

Features

• Includes a [Galaxy Workflow ...

Microbiome - QC and Contamination Filtering

Associated Tutorial

This workflows is part of the tutorial Pathogen detection from (direct Nanopore) sequencing data using Galaxy - Foodborne Edition, available in the GTN

Features

• Includes Galaxy Workflow Tests ...

Building an amplicon sequence variant (ASV) table from 16S data using DADA2

Associated Tutorial

This workflows is part of the tutorial Building an amplicon sequence variant (ASV) table from 16S data using DADA2, available in the GTN

Features

• Includes Galaxy Workflow Tests ...