diff --git a/src/UMIDistribution.java b/src/UMIDistribution.java
deleted file mode 100644
index 6d98fac..0000000
--- a/src/UMIDistribution.java
+++ /dev/null
@@ -1,166 +0,0 @@
-import java.io.BufferedReader;
-import java.io.BufferedWriter;
-import java.io.File;
-import java.io.FileWriter;
-import java.util.ArrayList;
-import java.util.Collections;
-import java.util.HashSet;
-import java.util.Set;
-
-import model.Parameters;
-import tools.Utils;
-
-public class UMIDistribution 
-{
-	public static boolean flag = false;
-	public static int[][] distribution = null; // [pos][A/C/G/T]
-	
-	public static void main(String[] args) throws Exception
-	{
-		Parameters.inputFastQFileR1 = new File("C:/Users/gardeux/Desktop/D1T0A_R1.fastq.gz");
-		Parameters.UMIRange[0] = 6;
-		Parameters.UMIRange[1] = 16;
-		Parameters.outputFolder = "C:/Users/gardeux/Dropbox/SCRBseq/Manuscript/Figures/FigureX/UMI/Distribution/";
-		distribution = new int[Parameters.UMIRange[1] - Parameters.UMIRange[0]][20];
-		readFastq();
-	}
-	
-	/**
-	 *  Reading reads barcodes/UMI from the R1 fastq file to map the UMI/barcode with the read name (lost after alignment)
-	 * @throws Exception Yes I know...
-	 */
-	public static void readFastq() throws Exception
-	{
-		System.out.println("Reading UMIs from the fastq file...");
-		BufferedReader br = Utils.readFastq(Parameters.inputFastQFileR1);
-		Set<UMICount> umis = new HashSet<UMICount>();
-		Long start = System.currentTimeMillis();
-		String umi = nextUMI(br);
-		while(umi != null)
-		{
-			Parameters.nbReads++;
-			int i = 0;
-			for(char c:umi.toCharArray())
-			{
-				distribution[i][c - 65]++; // 65 = A, 67 = C, 71 = G, 84 = T, 78 = N
-				i++;
-			}
-			if(Parameters.nbReads %Parameters.chunkSize == 0) 
-			{
-				System.out.println(Parameters.nbReads + " reads were processed from fastq file [" + Utils.toReadableTime(System.currentTimeMillis() - start) + "]");
-			}
-			flag = false;
-			if(!umis.add(new UMICount(umi, 1)))
-			{
-				if(!flag) throw new Exception("It failed");
-			}
-			umi = nextUMI(br);
-		}
-		br.close();
-		
-		System.out.println(Parameters.nbReads + " reads were processed from fastq file [" + Utils.toReadableTime(System.currentTimeMillis() - start) + "]");
-		System.out.println(umis.size() + " unique UMIs were found");
-			
-		System.out.println("\nSorting UMIs and generating output file.");
-		start = System.currentTimeMillis();
-		ArrayList<UMICount> list = new ArrayList<>(umis);
-		Collections.sort(list);
-		System.out.println("UMIs are sorted [" + Utils.toReadableTime(System.currentTimeMillis() - start) + "]");
-
-		int sanityCheck = 0;
-		BufferedWriter bw = new BufferedWriter(new FileWriter(Parameters.outputFolder + Parameters.inputFastQFileR1.getName().substring(0, Parameters.inputFastQFileR1.getName().lastIndexOf(".fastq.gz")) + ".unique.umis.count.txt"));
-		for(UMICount u:list) 
-		{
-			sanityCheck += u.count;
-			bw.write(u.uniqueUMI + "\t" + u.count + "\t" + Parameters.pcFormatter.format((u.count / (float)Parameters.nbReads) * 100) + "\n");
-		}
-		bw.close();
-		System.out.println("SanityCheck: " + sanityCheck);
-		
-		bw = new BufferedWriter(new FileWriter(Parameters.outputFolder + Parameters.inputFastQFileR1.getName().substring(0, Parameters.inputFastQFileR1.getName().lastIndexOf(".fastq.gz")) + ".umis.distribution.txt"));
-		for(int i = 0; i < distribution.length; i++) bw.write("\t" + (i+1));
-		bw.write("\n");
-		int[] bases = new int[] {0, 2, 6, 19};//65 = A, 67 = C, 71 = G, 84 = T
-		for(int base:bases)
-		{
-			bw.write((char)(base + 65));
-			for(int i = 0; i < distribution.length; i++)
-			{
-				bw.write("\t" + distribution[i][base]);
-			}
-			bw.write("\n");
-		}
-		bw.close();
-		
-		System.out.println("UMI count distribution is generated [" + Utils.toReadableTime(System.currentTimeMillis() - start) + "]");
-	}
-	
-	/**
-	 * Read FastQ file containing the mapping between read name, barcode and UMI.
-	 * @param fastQ input file
-	 * @return BufferedReader handle
-	 * @throws Exception
-	 */
-	public static String nextUMI(BufferedReader br) throws Exception
-	{
-		String res = null;
-		String header = br.readLine(); // Get first line = READNAME + INDEX
-		if(header == null) return null;
-		if(!header.startsWith("@")) throw new Exception("Fastq file has formatting issues");
-		String indexes = br.readLine().trim(); // Get second line = READ
-		try
-		{
-			res = indexes.substring(Parameters.UMIRange[0], Parameters.UMIRange[1]);
-		}
-		catch(IndexOutOfBoundsException boe)
-		{
-			br.close();
-			System.err.println("Error while parsing FastQ file");
-			System.err.println(boe.getMessage());
-			System.exit(-1);
-		}
-		br.readLine(); // Third line = we don't care
-		br.readLine(); // Fourth line = we don't care
-		return res;
-	}
-}
-
-class UMICount implements Comparable<UMICount>
-{
-	String uniqueUMI = null;
-	int count = 0;
-	
-	public UMICount(String s, int c) 
-	{
-		uniqueUMI = s;
-		count = c;
-	}
-	
-	@Override
-	public boolean equals(Object o) // Ugly way of corrupting the array :D
-	{
-		if(!(o instanceof UMICount)) return false;
-		UMICount umi = (UMICount)o;
-		if(this.uniqueUMI.equals(umi.uniqueUMI))
-		{
-			UMIDistribution.flag = true;
-			this.count += umi.count;
-			umi.count = this.count;
-			return true;
-		}
-		return false;
-	}
-	
-	@Override
-	public int hashCode() {
-	    return uniqueUMI.hashCode();
-	}
-	
-	@Override
-	public int compareTo(UMICount o) 
-	{
-		if(this.count < o.count) return 1;
-		if(this.count > o.count) return -1;
-		return 0;
-	}
-}
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