How To Format Somatic Mutations For Sift Annotation

Question

[shilpy]

What command can I use to format somatic mutation for SIFT annotation. I am working since yesterday on it no clue how to move forward.

[Rm]

@shilpy: be clear with your question. what you want to achieve give example input and potential output... so that other can give you suggestions

here are some input formats: http://provean.jcvi.org/help.php#genome_input_format ; http://sift.jcvi.org/www/chr_coords_example.html ..few more here http://sift.jcvi.org/

[shilpy]

INPUT: The script should take as input 2 vcf files (1 from normal and 1 from tumor sample) and an output file name. The script will read in the filtered vcf files generated above.