Workflows
What is a Workflow?Filters
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).
A rapid and portable workflow for pond-side sequencing of bacterial pathogens for sustainable aquaculture using ONT long-read sequencing.
Type: Nextflow
Creators: Georgina Samaha, Francisca Samsing, Mitchell O'Brien, Frederick Jaya
Submitter: Georgina Samaha
This workflow uses eggNOG mapper and InterProScan for functional annotation of protein sequences.
Crop Wild Relatives distribution modeling workflow using the ModGP; a prototype Digital Twin from BioDT.
This workflow performs subtyping and consensus sequence generation for batches of Illumina PE sequenced Influenza A isolates.
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 ...
General workflow to upload data into OMERO using Galaxy
A dataset for testing can be found at: https://zenodo.org/records/14205500
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