adding tools to map from chromosome positions to mRNA coding sequence position.

andreasprlic · andreasprlic · commit 1a27afc00f75 · 2016-07-12T17:18:25.000-07:00
diff --git a/biojava-genome/pom.xml b/biojava-genome/pom.xml
@@ -71,6 +71,12 @@
 		</plugins>
 	</build>
 	<dependencies>
+		<dependency>
+			<groupId>com.google.guava</groupId>
+			<artifactId>guava</artifactId>
+			<scope>compile</scope>
+			<version>19.0</version>
+		</dependency>
 		<dependency>
 			<groupId>junit</groupId>
 			<artifactId>junit</artifactId>
diff --git a/biojava-genome/src/main/java/org/biojava/nbio/genome/parsers/genename/ChromPos.java b/biojava-genome/src/main/java/org/biojava/nbio/genome/parsers/genename/ChromPos.java
@@ -0,0 +1,31 @@
+package org.biojava.nbio.genome.parsers.genename;
+
+/**
+ * Created by ap3 on 27/10/2014.
+ */
+public class ChromPos {
+
+    int pos;
+    int phase;
+
+    public int getPhase() {
+        return phase;
+    }
+
+    public void setPhase(int phase) {
+        this.phase = phase;
+    }
+
+    public int getPos() {
+        return pos;
+    }
+
+    public void setPos(int pos) {
+        this.pos = pos;
+    }
+
+    public ChromPos(int pos, int phase){
+        this.pos = pos;
+        this.phase = phase;
+    }
+}
diff --git a/biojava-genome/src/main/java/org/biojava/nbio/genome/util/ChromosomeMappingTools.java b/biojava-genome/src/main/java/org/biojava/nbio/genome/util/ChromosomeMappingTools.java
