This workflow generates from only an EBI SCXA reference the metadata for creating an ESet object

Associated Tutorial

This workflows is part of the tutorial Matrix Exchange Format to ESet | Creating a single-cell RNA-seq reference dataset for deconvolution, available in the GTN

Thanks to...

Workflow Author(s): Wendi Bacon, ...

This workflow creates an ESet object from scRNA metadata file and EBI SCXA retrieveal

Associated Tutorial

This workflows is part of the tutorial Matrix Exchange Format to ESet | Creating a single-cell RNA-seq reference dataset for deconvolution, available in the GTN

Features

• Uses ...

Workflow associated with this training: https://training.galaxyproject.org/training-material/topics/single-cell/tutorials/scrna-case_alevin-combine-datasets/tutorial.html

Associated Tutorial

This workflows is part of the tutorial Combining single cell datasets after pre-processing, available in the GTN

Features

• Includes ...

This workflow creates bulk ESet objects from uploaded raw matrix & metadata files

Associated Tutorial

This workflows is part of the tutorial Bulk matrix to ESet | Creating the bulk RNA-seq dataset for deconvolution, available in the GTN

Features

• Uses subworkflows ...

Updated March 2024

Associated Tutorial

This workflows is part of the tutorial Combining single cell datasets after pre-processing, available in the GTN

Thanks to...

Workflow Author(s): Julia Jakiela, Wendi Bacon

Tutorial Author(s): Wendi Bacon ...

This workflow is for the training material: https://training.galaxyproject.org/training-material/topics/single-cell/tutorials/scrna-case_alevin/tutorial.html

Associated Tutorial

This workflows is part of the tutorial Generating a single cell matrix using Alevin, available in the GTN

Features

• Includes a [Galaxy Workflow ...

Workflow for this training: https://training.galaxyproject.org/training-material/topics/single-cell/tutorials/scrna-case_basic-pipeline/tutorial.html

Associated Tutorial

This workflows is part of the tutorial Filter, plot and explore single-cell RNA-seq data with Scanpy, available in the GTN

Features

• Includes [Galaxy Workflow ...

This workflow runs 3 comparisons using MuSiC Deconvolution compare: where datasets cell compositions are inferred from a reference containing healthy and diseased cells; where diseased are inferred from disease and healthy from healthy; and where both diseased and healthy are inferred from a healthy reference.

Associated Tutorial

This workflows is part of the tutorial Comparing inferred cell compositions using MuSiC deconvolution, ...

Updated tool versions Aug 24 2022

Associated Tutorial

This workflows is part of the tutorial Filter, plot and explore single-cell RNA-seq data with Scanpy, available in the GTN

Features

• Includes Galaxy Workflow Tests
• Includes a [Galaxy ...

This workflow was built for the 2024 Bioinformatics Bootcamp at The Open University. It is meant to occur after the (universal) Filter, plot and explore tutorial to allow analysis of a single cluster.

This workflow was developed for the 2024 Bioinformatics Bootcamp at The Open University. It imports datasets from the EBI SCXA, reformats then, and analyses them similar to the Filter, plot and explore Galaxy tutorial.