Added some starter code to use new prior elicitation code from OpenCyto.
Updated the Excel files for the first 4 centers so that the markers are more straightforward to parse.
Updated munge scripts to use a generic color control if no FCS filename is provided for a marker. Related to #2
Slight tweaks to the munge script for compensation. Closes #2
Fixed two FCS filenames for compensation controls from NHLBI.
add fcsTrans
added fcsTransTransform
Extracted spillover matrices from FCS files for samples from the four centers. Stored them in 'data' folder.
Updated the B-cell munge script to utilize FCStrans.
Slight changes to Bcell GatingTemplate to increase size of lymph gate and improve gates downstream.
Updated munge code to use latest version of flowCore, which now has the FCStrans transform added.
We now pregate compensation controls before constructing compensation matrices.
Added knitr:::spin script to generate scatterplots of first 4 Lyoplate centers after compensating and transforming with FCStrans.
Updated B-Cell pipeline and summaries.
Merge branch 'update-prior-elicitation'