Workflows

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591 Workflows visible to you, out of a total of 635
BY-COVID WP5 T5.2 Baseline Use Case
Work-in-progress

This publication corresponds to the Research Objects (RO) of the Baseline Use Case proposed in T.5.2 (WP5) in the BY-COVID project on “COVID-19 Vaccine(s) effectiveness in preventing SARS-CoV-2 infection”.

Type: Quarto Markdown

Creators: Enrique Bernal-Delgado, Nina Van Goethem, Francisco Estupiñan-Romero, Marjan Meurisse, Javier González Galindo, Natalia Martínez-Lizaga, Santiago Royo-Sierra

Submitter: Marjan Meurisse

DOI: 10.48546/workflowhub.workflow.502.3

How Usable Are Published Permeability Data?
Stable
No description specified

Type: KNIME

Creator: Kateřina Storchmannová

Submitter: Kateřina Storchmannová

fluorescence-nuclei-segmentation-and-counting/main

This workflow performs segmentation and counting of cell nuclei using fluorescence microscopy images. The segmentation step is performed using Otsu thresholding (Otsu, 1979). The workflow is based on the tutorial: https://training.galaxyproject.org/training-material/topics/imaging/tutorials/imaging-introduction/tutorial.html

Type: Galaxy

Creator: Leonid Kostrykin

Submitter: WorkflowHub Bot

flavivirushelicase_apo

This is a Galaxy workflow for performing molecular dynamics simulations and analysis with flavivirus helicases in the Apo or unbound state. The associated input files can be found at: https://zenodo.org/records/7493015 The associated output files can be found at: https://zenodo.org/records/7850935

Type: Galaxy

Creator: Bryan Raubenolt

Submitter: Bryan Raubenolt

DOI: 10.48546/workflowhub.workflow.762.1

coronavirushelicase_proteindrugcomplex

This is a Galaxy workflow for performing molecular dynamics simulations and analysis with coronavirus helicases bound to a ligand/drug molecule. The associated input files can be found at: https://zenodo.org/records/7492987. The associated output files can be found at: https://zenodo.org/records/7851000.

Type: Galaxy

Creator: Bryan Raubenolt

Submitter: Bryan Raubenolt

DOI: 10.48546/workflowhub.workflow.763.1

coronavirushelicase_apo

This is a Galaxy workflow for performing molecular dynamics simulations and analysis with coronavirus helicases in the Apo or unbound state. The associated input files can be found at: https://zenodo.org/records/7492987. The associated output files can be found at: https://zenodo.org/records/7851000.

Type: Galaxy

Creator: Bryan Raubenolt

Submitter: Bryan Raubenolt

DOI: 10.48546/workflowhub.workflow.764.1

flavivirushelicase_proteindrugcomplex

This is a Galaxy workflow for performing molecular dynamics simulations and analysis with flavivirus helicases bound to a ligand/drug molecule. The associated input files can be found at: https://zenodo.org/records/7493015 The associated output files can be found at: https://zenodo.org/records/7850935

Type: Galaxy

Creator: Bryan Raubenolt

Submitter: Bryan Raubenolt

DOI: 10.48546/workflowhub.workflow.761.1

Example Multi-Wavelength Light-Curve Analysis
Work-in-progress

Protype demonstrator of a workflow reducing HESS and INTEGRAL/SPI-ACS data to common Light Curve format and combining the lightcurves into a multi-wavelength observation.

Type: Galaxy

Creators: Volodymyr Savchenko, Denys Savchenko, Andrii Neronov

Submitter: Volodymyr Savchenko

ONTViSc (ONT-based Viral Screening for Biosecurity)
Work-in-progress

ONTViSc (ONT-based Viral Screening for Biosecurity)

Introduction

eresearchqut/ontvisc is a Nextflow-based bioinformatics pipeline designed to help diagnostics of viruses and viroid pathogens for biosecurity. It takes fastq files generated from either amplicon or whole-genome sequencing using Oxford Nanopore Technologies as input.

The pipeline can either: 1) perform a direct search on the sequenced reads, 2) generate clusters, 3) assemble the reads to generate longer contigs or 4) directly ...

Type: Nextflow

Creators: Marie-Emilie Gauthier, Craig Windell, Magdalena Antczak, Roberto Barrero

Submitter: Magdalena Antczak

DOI: 10.48546/workflowhub.workflow.683.1

Refining Genome Annotations with Apollo (prokaryotes)

Refining Genome Annotations with Apollo

Type: Galaxy

Creator: Anthony Bretaudeau

Submitter: Paul De Geest

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