Flag: if enabled, it first checks the /Cache directory for all http://
codebase files and if not in the cache, it saves the file in the
cache after reading it from the Web.
calcMeanAndVariance() - compute the mean and variance of dataS[]
for 1 condition and save the results inmean[conditionK] and
variance[conditionK] arrays.
calcRemCond() - compute remainder list of condition names (R = DB - Ci)
where DB is all of the Conds in the database, and Ci are the Conds
in condition Ci.
calcRemSamples() - compute remainder list of sample names (R = DB - Ci)
where DB is all of the samples in the database, and Ci are the samples
in condition Ci.
calcXYstat() - compute correlation statistics string for display
rSq=.., n=.., X(mn+-sd)=(..+-..), Y(mn+-sd)=(..+-..)
If propList[] is not null, then test if filtered using
IS_FILTERED property.
calcXYstat() - compute correlation statistics string for display
rSq=.., n=.., X(mn+-sd)=(..+-..), Y(mn+-sd)=(..+-..)
If propList[] is not null, then test if filtered using
fc.IS_FILTERED value.
copyGenesInSubtreeToEGL() - Copy terminal genes in dendrogram subtree
to E.G.L for box that was selected at (selRow,selCol) such that terminal
genes LEQ selDist GT 0.0F and dcg.drawDendroGramFlag.
createStrReportOfOCL_FstatData() - make String report of OCL F-test for mList[0:nC-1]
If the OCL F-Test filter is active, then report F-test statistics.
createTableOfHP_XYstat() - make Table of HP_XYstatistics for mList[0:nC-1]
If the t-Test filter is active, then report t-test statistics
If the KS-Test filter is active, then report KS-test statistics
cvs2Array() - convert String arg list "1,4,3,6,..." to String[]
If there are more than maxExpected number of args in string, ignore
them and just return what has been parsed so far.
cvs2iArray() - convert String arg list "1,4,3,6,..." to int[]
If there are more than maxExpected number of args in string, ignore
them and just return what has been parsed so far.
cvtEnvPaths2Properties() - get all system ENV variables and set them as
separate Java properties so we can get them individually from
System.getProperty(var) calls.
cvtEnvPaths2Properties() - get all system ENV variables and set them as
separate Java properties so we can get them individually from
System.getProperty(var) calls.
cvtRawQdataToMAEdata() - convert .quant data to MAE data using HP array data ms.(bkgrdQ,totQ)[]
Note: totQ is RawIntensity, or unscaled ratio
RawIntensity1/RawIntensity2.
cvtStrArrayToStr() - create(String) from String[] array with "\n" w/len
Fast method creates a tmp Character [] of required size and
stuffs it, then converts it to a string at one time instead
of repeatedly using concat(i.e.