2017-01-10 Author: Nicolas Stifani [email protected]
This is a script for R processing data of spinal cord mapping
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Installation − Download R for your OS from https://cran.r-project.org/ − Install R − For Mac only o Xquartz is required. Download it from https://www.xquartz.org/ o Install X Quartz − Download Spinalcord_MappR.R from https://github.com/nstifani/Spinalcord_MappR
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Processing with Spinalcord_MappR.R It will prompt to select a folder containing the CSV X and Y Coordinates for each detected cell It will then prompt to select the Registration Coordinates CSV file generated previously in ImageJ SC Registration function It can prompt to select the Marker Information Created by Manual Cell Detection (Spinalcord_Mapper for ImageJ)
To do List
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Add weighted density
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Get inspired by FACS data analysis
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Perform DBSCAN Clustering http://scikit-learn.org/stable/modules/clustering.html http://www.statmethods.net/advstats/cluster.html http://scikit-learn.org/stable/auto_examples/cluster/plot_dbscan.html#sphx-glr-auto-examples-cluster-plot-