Workflows

What is a Workflow?
1294 Workflows visible to you, out of a total of 1377
Stable

Image processing pipeline from movies to micrographs, including CTF estimation and quality filters for image curation.

Type: Scipion

Creators: None

Submitter: Daniel Marchan

Metatranscriptomics analysis using microbiome RNA-seq data

Associated Tutorial

This workflows is part of the tutorial Metatranscriptomics analysis using microbiome RNA-seq data, available in the GTN

Features

Type: Galaxy

Creators: None

Submitter: GTN Bot

Metatranscriptomics analysis using microbiome RNA-seq data (short)

Associated Tutorial

This workflows is part of the tutorial Metatranscriptomics analysis using microbiome RNA-seq data (short), available in the GTN

Features

Type: Galaxy

Creators: None

Submitter: GTN Bot

Metatranscriptomics analysis using microbiome RNA-seq data (short)

Associated Tutorial

This workflows is part of the tutorial Metatranscriptomics analysis using microbiome RNA-seq data (short), available in the GTN

Features

Type: Galaxy

Creators: None

Submitter: GTN Bot

Metatranscriptomics analysis using microbiome RNA-seq data (short)

Associated Tutorial

This workflows is part of the tutorial Metatranscriptomics analysis using microbiome RNA-seq data (short), available in the GTN

Features

Type: Galaxy

Creators: None

Submitter: GTN Bot

Perform background subtraction, nuclear segmentation, feature quantification, cellular phenotyping, spatial analysis, and interactive visualization of registered TMA core multiplex tissue images

Type: Galaxy

Creator: Cameron Watson

Submitter: WorkflowHub Bot

A Retrieval-Augmented Knowledge Mining Method with Deep Thinking LLMs for Biomedical Research and Clinical Support

Introduction

Knowledge graphs and large language models (LLMs) serve as key tools for biomedical knowledge integration and reasoning, facilitating the structured organization of literature and the discovery of deep semantic relationships. However, existing methods still face challenges in knowledge mining and cross-document reasoning: knowledge graph construction is constrained ...

Type: Unrecognized workflow type

Creator: Yichun Feng

Submitter: Yichun Feng

DOI: 10.48546/workflowhub.workflow.1744.1

A Retrieval-Augmented Knowledge Mining Method with Deep Thinking LLMs for Biomedical Research and Clinical Support

Introduction

Knowledge graphs and large language models (LLMs) serve as key tools for biomedical knowledge integration and reasoning, facilitating the structured organization of literature and the discovery of deep semantic relationships. However, existing methods still face challenges in knowledge mining and cross-document reasoning: knowledge graph construction is constrained ...

Type: Unrecognized workflow type

Creators: None

Submitter: Yichun Feng

GitHub Actions CI Status GitHub Actions Linting StatusAWS CI[![Cite ...

Type: Nextflow

Creators: None

Submitter: WorkflowHub Bot

Stable

Using:

  • vadr annotation (virus model must be selected in options)
  • vardict variant caller
  • coverage depth Provides summarizing files:
  • png image of variant calling with annotations and coverage depths
  • tsv file with all information of significant variants only

Type: Galaxy

Creators: Fabrice Touzain, This study was founded by the French National Research Agency and by Santé publique France as part of the project "EMERGEN". Anses Ploufragan research was also supported by Agglomération de Saint-Brieuc, Département des Côtes d'Armor and Région Bretagne

Submitter: Fabrice Touzain

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