Workflows

Nucleoli segmentation and feature extraction using CellProfiler

Associated Tutorial

This workflows is part of the tutorial Nucleoli segmentation and feature extraction using CellProfiler, available in the GTN

Thanks to...

Tutorial Author(s): Beatriz Serrano-Solano, ...

example cellprofiler pipeline

Associated Tutorial

This workflows is part of the tutorial Object tracking using CellProfiler, available in the GTN

Thanks to...

Tutorial Author(s): Yi Sun, [Beatriz ...

Associated Tutorial

This workflows is part of the tutorial Pre-processing of 10X Single-Cell ATAC-seq Datasets, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Workflow Author(s): Pavankumar Videm

**Tutorial ...

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 allows you to annotate a genome with Helixer and evaluate the quality of the annotation using BUSCO and Genome Annotation statistics. GFFRead is also used to predict protein sequences derived from this annotation, and BUSCO and OMArk are used to assess proteome quality.

Associated Tutorial

This workflows is part of the tutorial Genome annotation with Helixer, available ...

This workflow is developed for automatic detection and measuring of mitoflashes in time-lapse microscopy images.

In addition, this workflow can be used for detection and tracking of other spot-like organelles with small motion.

If this workflow helped with the analysis of your data, please do not forget to cite: https://doi.org/10.1097/j.pain.0000000000002642

Associated Tutorial

This workflows is part of the tutorial [Tracking of mitochondria and capturing ...

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, ...

Genome annotation with Prokka

Associated Tutorial

This workflows is part of the tutorial Genome annotation with Prokka, available in the GTN

Features

• Includes Galaxy Workflow Tests

Thanks to...

Workflow Author(s): Anna Syme, Torsten ...

Nanopore datasets analysis - Phylogenetic Identification - antibiotic resistance genes detection and contigs building

Associated Tutorial

This workflows is part of the tutorial Pathogen detection from (direct Nanopore) sequencing data using Galaxy - Foodborne Edition, available in the GTN

Features

• Includes ...

Filter, Plot and Explore Single-cell RNA-seq Data

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

Thanks

...