Workflows

What is a Workflow?
793 Workflows visible to you, out of a total of 868

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Type: Nextflow

Creators: None

Submitter: WorkflowHub Bot

Purge duplicates from one haplotype. Prerequisites: run after a k-mer profiling workflow (VGP 1 or 2) and a contiging workflow (VGP 3,4 or 5).

Type: Galaxy

Creator: Galaxy, VGP

Submitter: WorkflowHub Bot

Stable

A rapid and portable workflow for pond-side sequencing of bacterial pathogens for sustainable aquaculture using ONT long-read sequencing.

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Type: Nextflow

Creator: Avani Bhojwani and Timothy Little

Submitter: WorkflowHub Bot

This workflow uses eggNOG mapper and InterProScan for functional annotation of protein sequences.

Type: Galaxy

Creators: Romane Libouban, Anthony Bretaudeau

Submitter: WorkflowHub Bot

Work-in-progress

Crop Wild Relatives distribution modeling workflow using the ModGP; a prototype Digital Twin from BioDT.

Type: Argo Workflow

Creator: Daniel Bauer

Submitter: Daniel Bauer

This workflow performs subtyping and consensus sequence generation for batches of Illumina PE sequenced Influenza A isolates.

Type: Galaxy

Creators: Wolfgang Maier, Viktoria Isabel Schwarz

Submitter: WorkflowHub Bot

Stable

Workflow to perform nuclei cell counting on High Content Screening (HCS) Data and upload result into OMERO

In this workflow, cell images are first uploaded to both Galaxy and OMERO using the “OMERO Image Import” tool. Concurrently, image processing is performed. After thresholding and binarization, key features of nuclei, such as area, label number, and perimeter, are computed from the processed images and saved as a CSV file. The result file is then attached to each image stored in OMERO using ...

Type: Galaxy

Creators: Riccardo Massei, Riccardo Massei

Submitter: Riccardo Massei

Stable

General workflow to upload data into OMERO using Galaxy

A dataset for testing can be found at: https://zenodo.org/records/14205500

Important Security Note: It is crucial to be aware that storing credentials as variables can pose security risks, particularly if accessed by administrators. Therefore, it is essential to handle user credentials securely and in accordance with best practices.

Type: Galaxy

Creators: Riccardo Massei, Matthias Bernt, Riccardo Massei

Submitter: Riccardo Massei

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Type: Nextflow

Creators: Peltzer , Alexander & Mohr, Christopher

Submitter: WorkflowHub Bot

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