Methylcheck

- Illumina Mouse Array Support
- Complete rewrite of documentation
- qc_signal_intensity and plot_M_vs_U have additional options, including superimposing poobah (percent probe failures per sample) on the plot coloring.
- .load will work on control_probes.pkl and mouse_probes.pkl files (with alt structure: dictionary of dataframe)
- .sample_plot uses "best" legend positioning now, because it was not fitting on screen with prev settings.

- get_sex() function returns a dataframe that also includes percent of X and Y probes that failed p-value-probe detection, as an indication of whether the predicted sex is reliable.
- better unit test coverage of predictions, load, load_both, and container_to_pkl functions
- fixed bug in load( 'meth_df')

- fixed bug in detect_array() where it labeled EPIC+ as EPIC

- minor fixes to load() and read_geo()
- exclude_probes() accepts problem_probes criteria as alternate way to specify probes.
- Exclude probes from a df of samples. Use list_problem_probes() to obtain a list of probes (or pass in the names of 'Criteria' from problem probes), then pass that in as a probe_list along with the dataframe of beta values (array)
- load_processed now has a --no_filter=False option that will remove probes that failed p-value detection, if passing in beta_values.pkl and poobah_values.pkl files.
- load() now handles gzipped files the same way (so .pkl.gz or .csv.gz OK as file or folder inputs)
- seaborn v0.10 --> v0.11 deprecrated the distplot() function that was used heavily. So now this employs kdeplot() in its place, with similar results.

- exposed more beta_density_plot parameters, so it can be used to make a QC plot (highlighting one
or several samples within a larger batch, and graying out the others in the plot).

- improved read_geo() function, for downloading GEO methylation data sets and parsing meta_data from projects.
- changed org name from life-epigenetics to FoxoBioScience on Github.