Workflows

What is a Workflow?
1299 Workflows visible to you, out of a total of 1382

qcif/taxodactyl is a modular, reproducible Nextflow workflow for the conservative taxonomy assignment to DNA sequences, designed for high-confidence, auditable results in biosecurity and biodiversity contexts. The workflow integrates multiple bioinformatics tools and databases, automates best-practice analysis steps, and produces detailed reports with supporting evidence for each taxonomic assignment.

Workflow Overview

The pipeline orchestrates a series of analytical steps, each encapsulated ...

Type: Nextflow

Creators: Magdalena Antczak, Cameron Hyde, Lanxi (Daisy) Li, Valentine Murigneux, Sarah Williams, Michael Thang, Bradley Pease, Shaun Bochow, Grace Sun

Submitter: Magdalena Antczak

DOI: 10.48546/workflowhub.workflow.1782.3

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

Thanks to...

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Type: Galaxy

Creators: None

Submitter: GTN Bot

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

Type: Galaxy

Creators: None

Submitter: GTN Bot

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

Type: Galaxy

Creators: None

Submitter: GTN Bot

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

Type: Galaxy

Creators: None

Submitter: GTN Bot

Annotating the novel peptides

Associated Tutorial

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

Features

Thanks to...

Workflow Author(s): GalaxyP ...

Type: Galaxy

Creators: None

Submitter: GTN Bot

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

Type: Galaxy

Creators: None

Submitter: GTN Bot

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

Type: Galaxy

Creators: None

Submitter: GTN Bot

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 ...

Type: Galaxy

Creators: None

Submitter: GTN Bot

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