Update readme for more modern usage
MakeSummaryTable deals with duplicates better

This would happen if you are merging adjacent slices, due, for instance, to low yield.
Better deal with replicate slices in Params
Merge branch 'master' of github.com:petercombs/EisenLab-Code
Merge branch 'master' of github.com:petercombs/EisenLab-Code
Incorporate changes to PlotUtils from Spring2013

Includes ISH colormap and various tweaks to options/how things are drawn
Add possibility for manually specified spacer between datasets
Possibility for separate per-sample normalization
Whitespace tweak
Merge branch 'master' into Spring2013

Conflicts:
	MakeSummaryTable.py
	PlotUtils.py
MakeSummaryTable ignores ---, not -
Merge branch 'master' into Spring2013