W: Compare mosaic images (multi-dataset)
Brief description
Generate mosaic images for all datasets.
Parameters
Centroid tag (type - string)
Tag to use for the object.
Normalization tag (type - string)
Tag to use for normalization.
Help
Rather than applying a normalization to the entire dataset, we apply it as needed to each task at hand.
You can compare the effect normalization has on specific task by repeating it with different normalization.
In some cases, its advised to use 'multi-dataset' normalization, in particular when doing comparisons.
Normalization name (type - string)
Name of the normalization.
Clip hotspots (type - boolean)
Clip image intensities to increase image contrast.
Quantile (type - boolean)
Use quantile normalization - only used if the Normalization tag is not specified.
Common intensity (type - boolean)
Use common intensity across multiple datasets.
No. of most abundant (type - integer)
Number of most intense features to use. If 'value=0' then all features will be used.
One directory (type - boolean)
Save all images in one directory.
Merge by m/z (type - boolean)
Mosaic of each m/z for all datasets should be created.
No. of columns (by m/z) (type - integer)
Number of columns for m/z images.
Merge by dataset (type - boolean)
Mosaic of images of each dataset should be created.
No. of columns (by dataset) (type - integer)
Number of columns for dataset images.
Colorbar (type - boolean)
Add colorbar to the image.
Colormap (type - string)
Colormap to use for the image.
DPI (type - integer)
DPI of the image.
Auto-rotate images (type - boolean)
Automatically rotate images that are taller than they are wider.
Export images as (type - string)
Export figures as image or within a single PDF or PowerPoint.
Dependencies (other tasks that this task might depend on)
| Depends on | Required/Optional |
|---|---|
| W: Extract ion centroids (single/multi-dataset) | required |
| W: Extract ion centroids (subset-project) | required |
| P: Normalization (single-dataset) | optional |
| P: Normalization (multi-dataset) | optional |
| P: Normalization (merged-project) | optional |
Attributes
| Attribute | Value | Description |
|---|---|---|
| Multiple allowed | True | Allow multiple instances of this task in a workflow. |
| Task can fail | True | Task is optional and can fail without causing the entire workflow to fail. |
| Step can fail | True | Sub-tasks of this task can fail without causing the entire task (and workflow) to fail. |
| Requires ion mobility | False | Task requires ion mobility data. |
| Task can fail (with ion mobility) | False | This task uses ion mobility data but it is allowed to fail, without causing the entire workflow to fail. |
| Allowed in reference dataset | True | Task is to be performed on a 'reference' dataset. This will allow for multiple analyses to be performed on the same dataset, without cluttering or duplicating certain tasks (unused at the moment). |