Derek Wright wrightdw
DanaCase
/ AperioToQuPath.groovy
Last active
May 6, 2023 09:05
Convert Exported Aperio Image Scope Annotations to QuPath Annotations
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| import qupath.lib.scripting.QP | |
| import qupath.lib.geom.Point2 | |
| import qupath.lib.roi.PolygonROI | |
| import qupath.lib.objects.PathAnnotationObject | |
| import qupath.lib.images.servers.ImageServer | |
| //Aperio Image Scope displays images in a different orientation | |
| def rotated = true |
brian-bot
/ knit2synapse.R
Last active
November 23, 2020 18:37
A function to allow users to leverage knitr functionality when constructing Synapse wiki content.
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| ##### | |
| ## AUTHOR: BRIAN M. BOT | |
| ## ORGANIZATION: SAGE BIONETWORKS | |
| ## | |
| ## ALLOW USERS TO LEVERAGE KNITR WHEN CONSTRUCTING SYNAPSE WIKI CONTENT | |
| ##### | |
| ## PARAMETERS: | |
| ## file: path to a local .Rmd file which to knit | |
| ## owner: a Synapse object which will own the resulting WikiPage (usually a Project, Folder, or File) | |
| ## parentWikiId (optional): if the resulting WikiPage is to be a subpage of another WikiPage, this is the id for the parent WikiPage (NOTE: owner is still required) |