manifest

# spatialGE.STplot.Launcher
# Mon, 28 Jan 2025 16:51:00 -0400
userid=tabor
author=Thorin Tabor;UCSD - Mesirov Lab
version=Initial version
taskType=javascript
categories=spatial transcriptomics, javascript
taskDoc=https://genepattern.github.io/spatialGE.STplot.Launcher/v1/
publicationDate=01/28/2025 16\:51
description=Generates high-quality figures showing the expression of genes in spatial context. 
os=any
cpuType=any
commandLine=app.html ? <dataset> <sample.info> <gene.info> <domain.info>
quality=preproduction
JVMLevel=
language=Javascript
name=spatialGE.STplot.Launcher
privacy=public
src.repo=https://github.com/genepattern/spatialGE.STplot.Launcher.git

p1_TYPE=FILE
p1_prefix_when_specified=
p1_fileFormat=rds
p1_MODE=IN
p1_value=
p1_description=Spatial transcriptomics data, coming from spatialGE.Preprocessing, spatialGE.STclust or another spatialGE module.
p1_optional=
p1_name=dataset
p1_default_value=
p1_type=java.io.File

p2_TYPE=FILE
p2_prefix_when_specified=
p2_fileFormat=json
p2_MODE=IN
p2_value=
p2_description=JSON file containing spot/cell and gene statistics for each sample, coming from the spatialGE.Preprocessing module.
p2_optional=
p2_name=sample.info
p2_default_value=
p2_type=java.io.File

p3_TYPE=FILE
p3_prefix_when_specified=
p3_fileFormat=json
p3_MODE=IN
p3_value=
p3_description=JSON file containing gene names for each sample, coming from the spatialGE.Preprocessing module.
p3_optional=
p3_name=gene.info
p3_default_value=
p3_type=java.io.File

p4_TYPE=FILE
p4_prefix_when_specified=
p4_fileFormat=json
p4_MODE=IN
p4_value=
p4_description=Optionally, a JSON file containing domain/cluster statistics for each sample, coming from the spatialGE.STclust module, may be provided if using clustering data in plots.
p4_optional=on
p4_name=domain.info
p4_default_value=
p4_type=java.io.File