Output Catalog
ASAP is committed to accelerating the pace of discovery and informing a path to a cure for Parkinson’s disease through collaboration, research-enabling resources, and data sharing. We’ve created this catalog to showcase the research outputs and tools developed by ASAP-funded programs.
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Output Type
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Program
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CRN Team Name
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Theme
Version 1.0 Neuromelanin quantification R scripts
Version 1.0 release of Neuromelanin quantification R scripts
Collection of command-line Python-based scripts for voxel-wise computation
Collection of command-line Python-based scripts for voxel-wise computation
Script for rat brain images processing
Script for rat brain images processing used in https://doi.org/10.1101/2024.10.22.619619
ImageJ FIJI code to semi-automatize the morphological analysis of microglia in histological sections
ImageJ FIJI code to semi-automatize the morphological analysis of microglia in histological sections.
Manual Tracking/image_prep.ijm
A script to register 2-channel timelapse images using HyperStackReg, using only 1 of the channels to compute transformation. The script also enhances contrast and prepares the image for manual tracking.
Manual Tracking/measure_ECM.ijm
A script to generate circular ROIs in each frame of a timelapse, using a previously generated track as reference. Used to measure fluorescence intensity (i.e., extracellular matrix content) along a microglia track. .
Manual Tracking/tracking.ijm
A script to store in ImageJ’s ROImanager the tracks generated using Manual Tracking plugin, for later use (drawing tracks, frame-by-frame analysis). To be used as a continuation of 1_image_prep.ijm.
Directionality_GMX
This script calculates a directionality index to assess the randomness of cell movement
HA_Skeleton_Analysis
This script assesses the complexity of extracellular matrix network through a skeleton analysis
