Workflows

What is a Workflow?

558 Workflows visible to you, out of a total of 602

Somatic-Variant-Discovery-from-WES-Data-Using-Control-FREEC

Stable

This workflow is created as part of a tutorial listed on GTN. The workflow shows the steps in human copy number variance detection using the Contrl_FREEC tool.

Type: Galaxy

Creators: khaled Jumah, Katarzyna Kamieniecka, Wolfgang Maier, Krzysztof Poterlowicz, poterlowicz-lab

Submitter: Khaled Jum'ah

DOI: 10.48546/workflowhub.workflow.676.1

Created: 23rd Nov 2023 at 17:19

Views: 1291, Downloads: 203

Evaluation of Swin Transformer and knowledge transfer for denoising of super-resolution structured illumination microscopy data

Stable

Evaluation of Swin Transformer and knowledge transfer for denoising of super-resolution structured illumination microscopy data

In recent years, convolutional neural network (CNN)-based methods have shown remarkable performance in the denoising and reconstruction of super-resolved structured illumination microscopy (SR-SIM) data. Therefore, CNN-based architectures have been the main focus of existing studies. Recently, however, an alternative and highly competitive deep learning architecture, ...

Type: Python

Creator: Zafran Hussain Shah

Submitter: Zafran Hussain Shah

DOI: 10.48546/workflowhub.workflow.675.1

Created: 21st Nov 2023 at 09:02, Last updated: 21st Nov 2023 at 10:28

Views: 640, Downloads: 174

PyCOMPSs simple example (ran on macOS laptop, input generated by the code, INOUT file example)

Workflows and Distributed Computing

Stable

Contact Person: support-compss@bsc.es Access Level: public License Agreement: Apache2 Platform: COMPSs

Description

Simple is an application that takes one value and increases it by five units. The purpose of this application is to show how tasks are managed by COMPSs.

Execution instructions

Usage:

runcompss --lang=python src/simple.py initValue

where:

initValue: Initial value for counter

Execution Examples

runcompss --lang=python src/simple.py 1 
runcompss
...

Type: COMPSs

Creators: Javier Conejero, The Workflows and Distributed Computing Team (https://www.bsc.es/discover-bsc/organisation/scientific-structure/workflows-and-distributed-computing/)

Submitter: Raül Sirvent

DOI: 10.48546/workflowhub.workflow.673.1

Created: 16th Nov 2023 at 14:27

Views: 592, Downloads: 86

Analyses of shotgun metagenomics data with MetaPhlAn2

QCIF Bioinformatics

(Show All)

Work-in-progress

The aim of this workflow is to handle the routine part of shotgun metagenomics data processing on Galaxy Australia.

The workflow is using the tools MetaPhlAn2 for taxonomy classification and HUMAnN2 for functional profiling of the metagenomes. The workflow is based on the Galaxy Training tutorial 'Analyses of metagenomics data - The global picture' (Saskia Hiltemann, Bérénice Batut) https://training.galaxyproject.org/training-material/topics/metagenomics/tutorials/general-tutorial/tutorial.html#shotgun-metagenomics-data. ...

Type: Galaxy

Creators: Valentine Murigneux, Mike Thang, Saskia Hiltemann, Bérénice Batut, The workflow is based on the Galaxy Training tutorial Analyses of metagenomics data. Thank you to the Galaxy Australia team, Igor Makunin and Mike Thang for help with the workflow

Submitter: Valentine Murigneux

DOI: 10.48546/workflowhub.workflow.624.1

Created: 26th Oct 2023 at 20:34, Last updated: 14th Nov 2023 at 21:43

Views: 1704, Downloads: 227