AUTHOR: David Ng, MD University of Washington Department of Laboratory Medicine DATE: 17 September 2014

/Input_Outputs/Comp_libs This folder contains spectral overlap coefficents for the various flow tubes - T-cell tube not collected yet

These are python classes accessed through Main.py that will:

1 find FCS files according to a case list and file structure (HEADER_FIND_FCS_files.py) 2 Read in uncompensated FCS files (HEADER_Import_FCS.py) 3 Bins FCS files and outputs cases (sets of FCS files) as a sparse row matrix (HEADER_ND_Binning.py) 4 Saves these results (and metadata) to an HDF5 file as follows (HEADER_Generate_HDF5.py):

    /data/<case num>/data
                    /indices
                    /indptr
                    /shape
n.b.: The saved elements in data are sufficent to regenerated a scipy.sparse.csr_matrix data stucture

'''

HEADER_Read_FCS.py Defines a class that handles reading of the HDF5 file. Work in progress