Release v0.12

Official v0.12 release

Author: WilliamKMLai

README.md

@@ -12,15 +12,15 @@ Scripts are generically categorized within semi-descriptive tabs and are designe
 
 The compiled JAR file will be output into the `build/libs` directory. 
 
-## Current scripts available (180614):
+## Current scripts available (181101):
 
 **BAM Statistics:**
 
   -BAM Statistics
 
   -Paired-End Statistics
 
-  -Signal Duplication
+  -BAM Genome Correlation
 
 
 **BAM Manipulation:**
@@ -50,18 +50,14 @@ The compiled JAR file will be output into the `build/libs` directory.
 **File Utilities:**
 
   -MD5 Checksum
-  
-  
-**Coordinate File Manipulation:**
 
-  -Expand BED/GFF File
-  
-  -Convert BED/GFF to GFF/BED
-  
-  -Sort BED/GFF by CDT
 
+**Peak Calling:**
 
-**Coordinate File Analysis:**
+  -Genetrack - still highly unstable
+
+  
+**Peak Analysis:**
 
   -Align BED to Reference
 
@@ -70,13 +66,26 @@ The compiled JAR file will be output into the `build/libs` directory.
   -Genomic Coordinate Tile
 
   -Generate Random Coordinate
+    
+  -Signal Duplication
+
+
+**Coordinate File Manipulation:**
+
+  -Expand BED/GFF File
+  
+  -Convert BED/GFF to GFF/BED
 
+  -Sort BED/GFF by CDT
+ 
 
-**Sequence Tag Analysis:**
+**Sequence Read Analysis:**
 
   -Tag Pileup
 
-  -Merge Heat Plots
+  -Calculate Scaling Factor
+  
+  -Scale Matrix Data
 
   -Aggregate Data
 
@@ -92,6 +101,12 @@ The compiled JAR file will be output into the `build/libs` directory.
   -DNA Shape from BED
 
   -DNA Shape from FASTA
+
+
+  **Figure Generation:**
+
+  -Heatmap
 
-  -4Color Sequence Plot
+  -Merge Heatmaps
 
+  -4Color Sequence Plot

build.gradle

@@ -9,7 +9,7 @@ apply plugin: 'eclipse'
 
 sourceSets.main.java.srcDirs = ['src']
 mainClassName = "main.ScriptManager"
-version = '0.11-dev'
+version = '0.12'
 sourceCompatibility = 1.8
 
 // Gradle builds for dev

src/main/ScriptManager.java

@@ -53,7 +53,7 @@
 import window_interface.Figure_Generation.MergeHeatMapWindow;
 
 public class ScriptManager {
-	public static final String VERSION = "0.11-dev";
+	public static final String VERSION = "0.12";
 
 	private JFrame frmScriptManager;	
 	/**