Workflows

What is a Workflow?

736 Workflows visible to you, out of a total of 791

ParslRNA-Seq: an efficient and scalable RNAseq analysis workflow for studies of differentiated gene expression

RNAseq workflow UMG: Here we introduce a scientific workflow implementing several open-source software executed by Galaxy parallel scripting language in an high-performance computing environment. We have applied the workflow to a single-cardiomyocyte RNA-seq data retrieved from Gene Expression Omnibus database. The workflow allows for the analysis (alignment, QC, sort and count reads, statistics generation) of raw RNA-seq data and seamless integration of differential expression results into a ...

Type: Galaxy

Creator: Kary Ocaña

Submitter: Kary Ocaña

DOI: 10.48546/workflowhub.workflow.412.1

Created: 6th Dec 2022 at 19:22

ParslRNA-seq Scientific Workflow

ParslRNA-Seq: an efficient and scalable RNAseq analysis workflow for studies of differentiated gene expression

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RNA-seq Scientific Workflow

Workflow for RNA sequencing using the Parallel Scripting Library - Parsl.

Reference: Cruz, L., Coelho, M., Terra, R., Carvalho, D., Gadelha, L., Osthoff, C., & Ocaña, K. (2021). Workflows Científicos de RNA-Seq em Ambientes Distribuídos de Alto Desempenho: Otimização de Desempenho e Análises de Dados de Expressão Diferencial de Genes. In Anais do XV Brazilian e-Science Workshop, p. 57-64. Porto Alegre: SBC. DOI: https://doi.org/10.5753/bresci.2021.15789 ...

Type: Unrecognized workflow type

Creators: Lucas Cruz, Luiz Gadelha, Kary Ocaña

Submitter: Kary Ocaña

DOI: 10.48546/workflowhub.workflow.411.1

Created: 6th Dec 2022 at 19:17

SimulatedReads2Map

Read2Map

Work-in-progress

Reads2Map

Reads2Map presents a collection of WDL workflows to build linkage maps from sequencing reads. Each workflow release is described in the [Read2Map releases ...

Type: Workflow Description Language

Creator: Cristiane Taniguti

Submitter: Cristiane Taniguti

DOI: 10.48546/workflowhub.workflow.410.1

Created: 29th Nov 2022 at 20:17

EmpiricalReads2Map

Read2Map

Work-in-progress

Reads2Map

Reads2Map presents a collection of WDL workflows to build linkage maps from sequencing reads. Each workflow release is described in the [Read2Map releases ...

Type: Workflow Description Language

Creator: Cristiane Taniguti

Submitter: Cristiane Taniguti

DOI: 10.48546/workflowhub.workflow.409.1

Created: 29th Nov 2022 at 20:09

GTN Training - Antibiotic Resistance Detection

Galaxy Training Network

Stable

Workflow for the GTN training "Antibiotic resistance detection"

Type: Galaxy

Creators: Saskia Hiltemann, Willem de Koning

Submitter: Saskia Hiltemann

Created: 24th Nov 2022 at 13:28

GBIF data Quality check and filtering workflow Feb-2020

PNDB

Stable

This Galaxy-E workflow was made from the "Cleaning GBIF data for the use in biogeography" tutorial and allows to:

Use CoordinateCleaner to automatically flag problematic records
Use GBIF provided meta-data to improve coordinate quality, tailored to your downstream analyses
Use automated cleaning algorithms of CoordinateCleaner to identify problematic contributing datasets
Visualize data ...

Type: Galaxy

Creator: Yvan Le Bras

Submitter: Yvan Le Bras

Created: 18th Nov 2022 at 14:39

RNA sequencing data obtained from organisms with a reference genome and annotation followed by a prediction step of editing sites using RDDpred

VIB Bioinformatics Core

Introduction

vibbits/rnaseq-editing is a bioinformatics pipeline that can be used to analyse RNA sequencing data obtained from organisms with a reference genome and annotation followed by a prediction step of editing sites using RDDpred.

The pipeline is largely based on the nf-core RNAseq pipeline.

The initial nf-core pipeline is built using Nextflow, a workflow tool to run tasks across multiple compute infrastructures in a very portable ...

Type: Nextflow

Creators: None

Submitter: Alexander Botzki

Created: 27th Jan 2022 at 10:44, Last updated: 4th Nov 2022 at 20:36