Ghana-Installation-software.md

@@ -436,7 +436,7 @@ URL: https://www.bioinformatics.babraham.ac.uk/projects/fastqc/
         unzip -u fastqc_v0.11.8.zip
         mv FastQC fastqc-0.11.8
         chmod +x fastqc-0.11.8/fastqc
-        chmod +x fastqc
+        
 
 Add /usr/local/bioinfo/fastqc-0.11.8 to the path :
 
@@ -448,3 +448,40 @@ Add /usr/local/bioinfo/fastqc-0.11.8 to the path :
 ### Usage:
           
             fastqc + arguments
+
+
+
+# R:
+
+Description: R is ‘GNU S’, a freely available language and environment for statistical computing and graphics which provides a wide variety of statistical and graphical techniques: linear and nonlinear modelling, statistical tests, time series analysis, classification, clustering, etc.
+
+
+URL: https://www.r-project.org/
+
+
+### Installation:
+
+        yum install readline-devel
+        yum install gfortran
+        yum install java-openjdk-1.8.0
+        wget https://cran.r-project.org/src/base/R-3/R-3.5.1.tar.gz
+        tar xvfz R-3.5.1.tar.gz
+        cd R-3.2.2
+$~ ./configure –with-x=no --with-lapack --with-blas --enable-R-shlib --prefix= /usr/local/bioinfo/R-3.5.1
+
+$~ make -I/usr/lib/jvm/java-1.7.0-openjdk-1.7.0.101-2.6.6.1.el7_2.x86_64/include/
+$~ make install 
+
+        
+
+Add /usr/local/bioinfo/R-3.5.1/bin to the path :
+
+       echo  'export PATH=/usr/local/bioinfo/R-3.5.1/bin/:$PATH' >>/etc/profile
+       
+       source /etc/profile
+
+
+### Usage:
+          
+            R to enter the console
+            install.packages("package_to_install")  # command to install a R package