Ghana-Installation-software.md

@@ -10,7 +10,7 @@ Artemis is a free genome browser and annotation tool that allows visualisation o
 
 Add /usr/local/bioinfo/artemis to the path :
 
-       echo  'export PATH=/usr/local/artemis/:$PATH' >>/etc/profile
+       echo  'export PATH=$PATH:/usr/local/artemis/' >>/etc/profile
        source /etc/profile
 
 ### Usage :
@@ -27,6 +27,29 @@ For other available options use:
            
         art -help
 
+# Augustus :
+
+AUGUSTUS is a program that predicts genes in eukaryotic genomic sequences.
+       URL : http://bioinf.uni-greifswald.de/augustus/
+### Installation :
+
+      wget  https://github.com/Gaius-Augustus/Augustus/archive/3.3.2.tar.gz
+      tar xfvz 3.3.2.tar.gz -C /usr/local/bioinfo/
+      cd /usr/local/bioinfo/Augustus-3.3.2
+      make
+      make install
+
+Add /usr/local/bioinfo/Augustus-3.3.2 to the path :
+
+       echo  'export PATH=/usr/local/bioinfo/Augustus-3.3.2/augustus/bin/:$PATH' >>/etc/profile
+       echo  'export PATH=/usr/local/bioinfo/Augustus-3.3.2/augustus/scripts/:$PATH' >>/etc/profile
+       echo  'export AUGUSTUS_CONFIG_PATH=/usr/local/bioinfo/Augustus-3.3.2/augustus/config' >>/etc/profile
+       source /etc/profile
+
+### Usage :
+
+    augustus + arguments
+
 # bam-readcount :
 
 The purpose of this program is to generate metrics at single nucleotide positions.