*first commit*
Add __init__ file for project
created script to run plsa.
finished draft of running file. every works as it did before.
changed order of functions. made importdata() a staticmethod
Can print out topic labels. Optional 'sampling' parameter to analyze
only a subset of the data.
Added a utilities.py for scripts such as finding OTU names from id
number.
created a function in utilities which reads a .biom file and saves the
data in a numpy array.
import_biom_file can parse dense and sparse OTU tables though the dense
format hasn't been tested yet.
debugging why plsa errors when using biom data... also 'sampling' non
functional for biom data yet.
saving results in .csv files in Results folder.
Added a uttility function to plot the read counts per sample.
Added a data_count() function which measures and plots the OTU, tag, and
sample diversity counts.
Added Mathieu Blondel's task manager code to repository.
Added our modified copy of Mathieu Blondel's PLSA code to repository.
Added path to PLSA to MicrobPLSA class. Everything works as before.
Fixed error. PLSA runs on .biom datamatrix
Changed maxiter
wrote a for loop to run plsa with different topic numbers.
Changed gmtime() added to filename of results to localtime() because is
was showing the time in the wrong timezone!