Downstream Single-cell RNA Plant analysis with ScanPy
Associated Tutorial
This workflows is part of the tutorial Analysis of plant scRNA-Seq Data with Scanpy, available in the GTN
Thanks to...
Tutorial Author(s): Mehmet Tekman, [Beatriz ...
Associated Tutorial
This workflows is part of the tutorial Filter, plot, and explore single cell RNA-seq data with Seurat, available in the GTN
Features
- Includes Galaxy Workflow Tests
Thanks to...
Workflow Author(s): ...
Workflow for the first half of the "Bulk RNA Deconvolution with MuSiC" tutorial.
Associated Tutorial
This workflows is part of the tutorial Bulk RNA Deconvolution with MuSiC, available in the GTN
Features
- Includes Galaxy Workflow Tests
- Includes a [Galaxy ...
Pseudobulk Analysis Workflow for Tutorial
Associated Tutorial
This workflows is part of the tutorial Pseudobulk Analysis with Decoupler and EdgeR, available in the GTN
Features
- Includes Galaxy Workflow Tests
- Includes a [Galaxy Workflow ...
Workflow for the second half of the "Bulk RNA Deconvolution with MuSiC" tutorial.
Implements the "Estimation of cell type proportions with pre-grouping of cell types" section
Associated Tutorial
This workflows is part of the tutorial Bulk RNA Deconvolution with MuSiC, available in the GTN
Features
- Includes [Galaxy Workflow ...
Associated Tutorial
This workflows is part of the tutorial Removing the effects of the cell cycle, available in the GTN
Features
- Includes Galaxy Workflow Tests
- Includes a Galaxy Workflow Report ...
Associated Tutorial
This workflows is part of the tutorial Pre-processing of 10X Single-Cell RNA Datasets, available in the GTN
Features
- Includes Galaxy Workflow Tests
- Includes a [Galaxy Workflow ...
Downstream Single-cell RNA analysis with RaceID
Associated Tutorial
This workflows is part of the tutorial Downstream Single-cell RNA analysis with RaceID, available in the GTN
Features
- Includes Galaxy Workflow Tests
- Includes a [Galaxy Workflow ...
Single-cell quality control with scater
Associated Tutorial
This workflows is part of the tutorial Single-cell quality control with scater, available in the GTN
Features
- Includes Galaxy Workflow Tests
- Includes a [Galaxy Workflow ...
Downstream Single-cell RNA Plant analysis with ScanPy
Associated Tutorial
This workflows is part of the tutorial Analysis of plant scRNA-Seq Data with Scanpy, available in the GTN
Features
- Includes Galaxy Workflow Tests
- Includes a [Galaxy Workflow ...
This Workflow takes a dataset collection of single-cell ATAC-seq fragments and performs:
- preprocessing
- filtering
- concatenation
- dimension reduction
- batch correction (with Harmony and optionally Scanorama and MNC-correct)
- leiden clustering
- new SnapATAC2 version: from 2.5.3 to 2.6.4
Type: Nextflow
Creators: Peter J Bailey, Bailey PJ, Alexander Peltzer, Botvinnik O, Olga Botvinnik, Marques de Almeida F, Peltzer A, Sturm G
Submitter: WorkflowHub Bot
