readAnnotate.R: removed .readTableFast.R
readData.R: renamed .readTableFast.R readTableFast.R
findTfComb.R:
	renamed file to findTFComb.R
	capitalized all Tf to TF in the file
	added a missing parenthesis at the end of the file
Vignette changed to knitr status.
NAMESPACE:
	changed plotMatrix to heatMatrix
	sorted the classes and methods by name

GenomationManual-knitr.Rnw:
	renamed 2 chuncks which had the same name
.gitignore:
	added the GenomationDevtools.R
see previous commit