Workflows

What is a Workflow?
315 Workflows visible to you, out of a total of 343
Stable

SynProtX

DOI

An official implementation of our research paper "SynProtX: A Large-Scale Proteomics-Based Deep Learning Model for Predicting Synergistic Anticancer Drug Combinations".

SynProtX is a deep learning model that integrates large-scale proteomics data, molecular graphs, and chemical fingerprints to predict synergistic effects of anticancer drug combinations. It provides robust ...

Stable

SAMBA is a FAIR scalable workflow integrating, into a unique tool, state-of-the-art bioinformatics and statistical methods to conduct reproducible eDNA analyses using Nextflow. SAMBA starts processing by verifying integrity of raw reads and metadata. Then all bioinformatics processing is done using commonly used procedure (QIIME 2 and DADA2) but adds new steps relying on dbOTU3 and microDecon to build high quality ASV count tables. Extended statistical analyses are also performed. Finally, SAMBA ...

Type: Nextflow

Creators: Cyril Noel, Alexandre Cormier, Laura Leroi, Patrick Durand, Laure Quintric

Submitter: Cyril Noel

DOI: 10.48546/workflowhub.workflow.156.1

Stable

Introduction

wombat-p pipelines is a bioinformatics analysis pipeline that bundles different workflow for the analysis of label-free proteomics data with the purpose of comparison and benchmarking. It allows using files from the proteomics metadata standard SDRF.

The pipeline is built using Nextflow, a workflow tool to run tasks across multiple compute infrastructures in a very portable manner. It uses ...

Type: Nextflow

Creators: Veit Schwämmle, Magnus Palmblad

Submitters: Laura Rodriguez-Navas, José Mª Fernández

DOI: 10.48546/workflowhub.workflow.444.2

Click-qPCR

Ultra-simple tool for interactive qPCR data analysis developed by R and Shiny.

Read this document in Japanese (日本語版のユーザーガイドはこちら)

Overview

Click-qPCR is a user-friendly Shiny web application designed for the straightforward analysis of real-time quantitative PCR (qPCR) data.

This tool is readily accessible via a web browser at https://kubo-azu.shinyapps.io/Click-qPCR/, requiring no local installation for end-users. ...

Type: Unrecognized workflow type

Creator: Azusa Kubota

Submitter: Azusa Kubota

SeuratExtend: An Enhanced Toolkit for scRNA-seq Analysis

Overview

SeuratExtend is an R package designed to provide an improved and easy-to-use toolkit for scRNA-seq analysis and visualization, built upon the Seurat object. While Seurat is a widely-used tool in the R community that offers a foundational framework for scRNA-seq analysis, it has limitations when it comes to more advanced analysis and customized visualization. SeuratExtend expands upon Seurat by offering an array of ...

Type: Unrecognized workflow type

Creator: Yichao Hua

Submitter: Yichao Hua

DOI: 10.48546/workflowhub.workflow.1385.1

Work-in-progress

Annual percentage Change for population in Germany (1950 - 2025)

This workflow run was executed on Galaxy (Workflow Rerun Information)

Workflow: Climate Stripes

Execution Status: scheduled

Executed: 2025-05-27 14:14:07.240149

Workflow Inputs

Formal Input Definitions

  • Germany-Population-Annual--Change-2025-05-27-15-17.csv (File)

  • Column name to use for plotting (Text)

  • Plot Title (Text)

  • nxsplit (Integer)

  • Description: Number of values per intervals

...

No description specified

Type: Snakemake

Creators: None

Submitter: Jiamian He

This is the workflow for thesis: A FAIR Data Pipeline for Ecosystem Research, with Machine Learning and Marine Acoustic Data (Jiamian He)

Type: Snakemake

Creator: Jiamian He

Submitter: Jiamian He

A workflow for performing alignment and phylogeny using protein sequences from the CrusTome database. See crustybase.org/crustome for more information.

Type: Galaxy

Creators: None

Submitter: Avani Bhojwani

Stable

Calculate extended gamma-ray source halo using crbeam simulation

Type: Galaxy

Creators: None

Submitter: Oleg Kalashev

Powered by
(v.1.17.0-main)
Copyright © 2008 - 2025 The University of Manchester and HITS gGmbH