CNVRuler 1.42b

What's new:

1.42 (Dec. 12. 2013)
- (FIX) Unattempt behavior of CNV sort routine causes empty output 
        (thanks to Gina)

1.41 (Mar. 18. 2013)
- (ADD) Experimental support for MacOS
          Run Linux Excuttable in the same manner (thanks to Brad)

1.4(Nov.2nd. 2012)
- (FIX) Many minor bugs are now fixed

1.3.3.1 (Aug. 6th. 2012)
- (FIX) Improve read original format (Mostly occurred by files converted from MS EXEL)
        Now it can read files with column names contains space or with null lines.
        Phenotype values with space will be ignored (ex: "1 " or "0 ")
        Column names are no more case sensitive
        Detecting error for newer version of R

1.3.3 (Apr. 20th. 2012)
- (ADD) Import Multiple Genomic Workbench files (Experimental)
          Text files from GW in same directory could be imported with extensions ".xls"
- (FIX) Import from Genomic Workbench file improved
- (FIX) 'Chi-Square Test' result with NaN when MAF is 0
- (FIX) Overwrite if previous temp files are not deleted
- (FIX) CNVR with 0 threshold fixed

1.3.2 (Apr. 10th. 2012)
- (FIX) Import from QuantiSNP improved
- (FIX) Import from BirdSuite improved
- (FIX) Frequency of Regression report

1.3.1 (Mar. 27th. 2012)
- (ADD) Now CST can be calculate without Yate's correction.
- (ADD) Display odds ratio value for CST and FET
- (REMOVE) Member list from the CNVR region file on temporary directory.

1.3 (Mar. 6th. 2012)
- (FIX) Population stratification now uses as many covariates as users want. (up to 3)
- (FIX) Reading clinical information file much flexibly
- (FIX) FET and CST do not need R anymore. It's done by CNV-Ruler itself

1.2.3 (Feb. 27th. 2012)
- (FIX) 'Chi-Square Test' with single CNV file
- (FIX) Bonferroni values won't be bigger than 1

1.2.2
- (ADD) Auto-detect for R install directory (Windows only)
- (FIX) Genotyping Console Input
- (FIX) 'Chi-square Test' when divided by zero
- (FIX) Minor exception error
- (REMOVE) 'Fragment' (Windows only)
               Due to the difference of memory management between Windows and Linux.

1.2.1
- (ADD) Import from BirdSuite
- (ADD) 'LOD Threshold' for BirdSuite
- (ADD) Import multiple files from stand-alone QuantiSNP 
          Previous QuantiSNP support was for a plug-in of Genome Studio only)
- (FIX) Import previously defined CNVR for Multiple CNV files

1.2
- (ADD) 'Likelihood Ratio Test' for 'Logistic Regression'
- (ADD) 'Population Stratification by PCA' for 'Logistic Regression'

1.11
- (FIX) Agilent 'Gain/Loss separated region'

1.1
- (ADD) Gain/Loss separated P values and oddsratios for regions (logistic regression only)
- (ADD) 'Gain/Loss separated region' with Fragment
- (FIX) New faster processing algorithm for Fragment
- (FIX) Cannot find files on Windows OS

1.0.6
- (FIX) Change interface layout and labels
'Gain/Loss separated region' instead 'Gain/Loss'
'Include CNVs over low frequency area' instead 'Oversized CNV'
- (FIX) Show sample ID colume in extra covariates selection window (in list but unabled)

1.0.5.1
- (FIX) 'Gain/Loss' is disabled by default
- (REMOVE) 'Binary Status'. Now CNVRuler supports binomial logistic regression only

1.0.5
- (ADD) Fisher's Exact Test
- (FIX) Report form
- (Fix) Fragments Import
- (FIX) Change naming rule for temporary stored region file

1.0.2
- (ADD) Binary Status
- (REMOVE) 'Gain/Loss' with Fragment
- (Fix) 'Gain/Loss' with R.O.

1.0.1
- (ADD) Print error line when reading file
- (ADD) Import from Genotyping Console
- (ADD) Import multiple files from Genotyping Console and NimbleScan
- (ADD) Segment Mean Threshold from NimbleScan and TCGA

1.0
- Initial release with GUI