Workflows

What is a Workflow?

834 Workflows visible to you, out of a total of 910

VGP genome profile analysis

usegalaxy-eu

Work-in-progress

Create Meryl Database used for the estimation of assembly parameters and quality control with Merqury. Part of the VGP pipeline.

Type: Galaxy

Creator: Delphine Lariviere

Submitter: Cristóbal Gallardo

Created: 5th Apr 2022 at 12:22

(old) SARS-COV2 version of the V-Pipe workflow

V-Pipe

A version of V-pipe (analysis of next generation sequencing (NGS) data from viral pathogens) specifically adapted to analyze high-throughput sequencing data of SARS-CoV-2.

Type: Snakemake

Creators: Ivan Topolsky, Susana Posada Céspedes, Niko Beerenwinkel,

Submitter: Hervé Ménager

Download

Created: 10th Apr 2020 at 14:46, Last updated: 30th Mar 2022 at 17:37

eQTL-Catalogue/qtlmap

CINECA

eQTL-Catalogue/qtlmap

Portable eQTL analysis and statistical fine mapping workflow used by the eQTL Catalogue

Introduction

eQTL-Catalogue/qtlmap is a bioinformatics analysis pipeline used for QTL Analysis.

The workflow takes phenotype count matrix (normalized and quality controlled) and genotype data as input, and finds associations between them with the help of sample metadata and phenotype metadata files (See Input formats and preparation for required input ...

Type: Nextflow

Creators: None

Submitter: Kaur Alasoo

Created: 29th Mar 2022 at 17:10, Last updated: 29th Mar 2022 at 17:38

Galaxy Protein Ligand Complex MD Setup

BioBB Building Blocks

Stable

Protein Ligand Complex MD Setup tutorial using BioExcel Building Blocks (biobb)

This workflow must be run in biobb.usegalaxy.es. Please, click here to access.

Based on the official GROMACS tutorial.

This tutorial aims to illustrate the process of setting up a simulation system containing a protein in complex with a ligand, step by ...

Type: Galaxy

Creators: Adam Hospital, Genís Bayarri

Submitter: Genís Bayarri

DOI: 10.48546/workflowhub.workflow.295.3

Created: 24th Mar 2022 at 14:47

Python CNS/XPLOR MD Automatic Ligand Parameterization tutorial

BioBB Building Blocks

Stable

Automatic Ligand parameterization tutorial using BioExcel Building Blocks (biobb)

This tutorial aims to illustrate the process of ligand parameterization for a small molecule, step by step, using the BioExcel Building Blocks library (biobb). The particular example used is the Sulfasalazine protein (3-letter code SAS), used to treat rheumatoid arthritis, ulcerative colitis, and Crohn's disease.

OpenBabel and ACPype packages are used to **add hydrogens, energetically ...

Type: Python

Creators: Adam Hospital, Genís Bayarri

Submitter: Genís Bayarri

DOI: 10.48546/workflowhub.workflow.293.2

Created: 17th Mar 2022 at 14:49, Last updated: 17th Mar 2022 at 14:50

Python Amber Automatic Ligand Parameterization tutorial

BioBB Building Blocks

Stable

Automatic Ligand parameterization tutorial using BioExcel Building Blocks (biobb)

OpenBabel and ACPype packages are used to **add hydrogens, energetically ...

Type: Python

Creators: Adam Hospital, Genís Bayarri

Submitter: Genís Bayarri

DOI: 10.48546/workflowhub.workflow.292.2

Created: 17th Mar 2022 at 14:45

Python GMX OPLS/AA Automatic Ligand Parameterization tutorial

BioBB Building Blocks

Stable

Automatic Ligand parameterization tutorial using BioExcel Building Blocks (biobb)

OpenBabel and ACPype packages are used to **add hydrogens, energetically ...

Type: Python

Creators: Adam Hospital, Genís Bayarri

Submitter: Genís Bayarri

DOI: 10.48546/workflowhub.workflow.291.2

Created: 17th Mar 2022 at 14:08

CWL GMX Automatic Ligand Parameterization tutorial

BioBB Building Blocks

Stable

Automatic Ligand parameterization tutorial using BioExcel Building Blocks (biobb)

OpenBabel and ACPype packages are used to **add hydrogens, energetically ...

Type: Common Workflow Language

Creators: Adam Hospital, Genís Bayarri

Submitter: Genís Bayarri

DOI: 10.48546/workflowhub.workflow.255.2

Created: 10th Jan 2022 at 10:39, Last updated: 17th Mar 2022 at 14:06

CWL Protein MD Setup tutorial with mutations

BioBB Building Blocks

Stable

Mutations Protein MD Setup tutorial using BioExcel Building Blocks (biobb)

Based on the official GROMACS tutorial.

This tutorial aims to illustrate the process of setting up a simulation system containing a protein, step by step, using the BioExcel Building Blocks library (biobb). The particular example used is the Lysozyme protein (PDB code 1AKI).