Introduction
Script
Input
Output
STUtility
Introduction
STutility is an R-package with the goal of providing an easy-to-use visualization and analysis tool kit for spatial transcriptomics data.
Script
Input
| Task name | Attribute name | Type | Description |
|---|---|---|---|
| * STUtility | spotfiles | Array[File] | spot files |
| * STUtility | samples | Array[File] | 10X data h5 file or ST sample file |
| * STUtility | platform | String | sequencing platform |
| * STUtility | min_spot_count | Int | minimum spot count |
| * STUtility | min_gene_spots | Int | minimum gene spots |
| * STUtility | min_gene_count | Int | minimum gene count |
| * STUtility | json | Array[File] | 10x scalefactors_json files |
| * STUtility | is_ST | Boolean | if data type is ST |
| * STUtility | is_10x_Visium | Boolean | if data type is 10x |
| * STUtility | imgs | Array[File] | image files |
Output
| Task name | Attribute name | Type | Description |
|---|---|---|---|
| STUtility | STUtilityOut | File | output image processed file |
| STUtility | STUtilityOutquality | File | output Quality control picture |
| STUtility | STUtilityOutfeature | File | output feature distribution picture |
| STUtility | STUtilityOutimage_process | File | output image processed picture |
| STUtility | STUtilityOutseurat_clusters | File | output Clustering picture |