Ghana-Installation-software.md

@@ -354,6 +354,38 @@ Add /usr/local/bioinfo/htslib-1.9 to the path :
        
        source /etc/profile
 
+# bcftools:
+
+bcftools — utilities for variant calling and manipulating VCFs and BCFs.
+
+URL: https://samtools.github.io/bcftools/bcftools.html
+
+
+
+
+### Installation:
+
+     git clone https://github.com/samtools/bcftools.git
+    cd bcftools
+    autoheader
+    autoconf
+    ./configure --prefix=/usr/local/bioinfo/bcftools-1.9
+    make
+    make install
+   
+
+         
+                 
+Add /usr/local/bioinfo/bcftools-1.9 to the path :
+
+       echo  'export PATH=/usr/local/bioinfo/bcftools-1.9:$PATH' >>/etc/profile
+       
+       source /etc/profile
+
+### Usage:
+          
+           bcftools + arguments
+
 
 # Samtools:
 
@@ -365,19 +397,19 @@ URL: https://github.com/samtools/samtools
 
 ### Installation:
 
-        wget https://downloads.sourceforge.net/project/samtools/samtools/0.1.19/samtools-0.1.19.tar.bz2
-        tar xjf samtools-0.1.19.tar.bz2
-        cd samtools-0.1.19
+        wget https://github.com/samtools/samtools/releases/download/1.9/samtools-1.9.tar.bz2
+        tar xjf samtools-1.9.tar.bz2
+        cd samtools-1.9
         make
         cd ..
-        cp -r samtools-0.1.19 /usr/local/bioinfo
-        chmod -R 777 /usr/local/bioinfo/samtools-0.1.19
+        cp -r samtools-1.9 /usr/local/bioinfo
+        chmod -R 777 /usr/local/bioinfo/samtools-1.9
 
          
                  
-Add /usr/local/bioinfo/samtools-0.1.19 to the path :
+Add /usr/local/bioinfo/samtools-1.9 to the path :
 
-       echo  'export PATH=/usr/local/bioinfo/samtools-0.1.19:$PATH' >>/etc/profile
+       echo  'export PATH=/usr/local/bioinfo/samtools-1.9:$PATH' >>/etc/profile
        
        source /etc/profile