Workflow Type: Galaxy
Open
Bulk RNA Deconvolution with MuSiC
Associated Tutorial
This workflows is part of the tutorial MuSiC Workflow, available in the GTN
Thanks to...
Tutorial Author(s): Mehmet Tekman, Wendi Bacon
Inputs
ID | Name | Description | Type |
---|---|---|---|
Bulk RNA Annotation | Bulk RNA Annotation | n/a |
|
Bulk RNA Assay Tabular | Bulk RNA Assay Tabular | n/a |
|
Cell Markers C1 | Cell Markers C1 | n/a |
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Cell Markers C2 | Cell Markers C2 | n/a |
|
Cell Types List | Cell Types List | n/a |
|
scRNA Assay Tabular | scRNA Assay Tabular | n/a |
|
scRNA Metadata | scRNA Metadata | n/a |
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scRNA Phenotype Tabular | scRNA Phenotype Tabular | n/a |
|
Steps
ID | Name | Description |
---|---|---|
8 | Construct scRNA ESet Object | toolshed.g2.bx.psu.edu/repos/bgruening/music_construct_eset/music_construct_eset/0.1.1+galaxy0 |
9 | Construct Bulk RNA ESet Object | toolshed.g2.bx.psu.edu/repos/bgruening/music_construct_eset/music_construct_eset/0.1.1+galaxy0 |
10 | Extract Cell Types | toolshed.g2.bx.psu.edu/repos/bgruening/music_inspect_eset/music_inspect_eset/0.1.1+galaxy3 |
11 | Extract General Info | toolshed.g2.bx.psu.edu/repos/bgruening/music_inspect_eset/music_inspect_eset/0.1.1+galaxy3 |
12 | Extract General Info (Bulk) | toolshed.g2.bx.psu.edu/repos/bgruening/music_inspect_eset/music_inspect_eset/0.1.1+galaxy3 |
13 | Music: Estimate Cell Proportions | toolshed.g2.bx.psu.edu/repos/bgruening/music_deconvolution/music_deconvolution/0.1.1+galaxy3 |
14 | Music: Compute Dendrogram | toolshed.g2.bx.psu.edu/repos/bgruening/music_deconvolution/music_deconvolution/0.1.1+galaxy3 |
Outputs
ID | Name | Description | Type |
---|---|---|---|
Construct Expression Set Object on input dataset(s): RData ESet Object | Construct Expression Set Object on input dataset(s): RData ESet Object | n/a |
|
_anonymous_output_9 | _anonymous_output_9 | n/a |
|
_anonymous_output_10 | _anonymous_output_10 | n/a |
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Inspect Expression Set Object on input dataset(s): Inspection Result | Inspect Expression Set Object on input dataset(s): Inspection Result | n/a |
|
_anonymous_output_11 | _anonymous_output_11 | n/a |
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_anonymous_output_12 | _anonymous_output_12 | n/a |
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_anonymous_output_13 | _anonymous_output_13 | n/a |
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MuSiC on input dataset(s): PDF Plots | MuSiC on input dataset(s): PDF Plots | n/a |
|
Version History
2.0 (earliest) Created 25th Jun 2024 at 11:13 by Helena Rasche
Added/updated 4 files
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Views: 139 Downloads: 49
Created: 25th Jun 2024 at 11:13
Last updated: 25th Jun 2024 at 11:13
![help](/assets/famfamfam_silk/information-8cfe563be76fb11b27c8ba778f5d40ce6800b244d6ca58ef6e9973308efbe534.png)
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