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01-20-2009
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How to use the programming in UNIX to count the total G+C and the GC%?What command li
Seems like can use awk and perl command. But I don't have the idea to write the command line. Thanks for all of your advise.
For example, if I have the file whose content are: Sample 1. ATAGCAGAGGGAGTGAAGAGGTGGTGGGAGGGAGCT Sample 2. ACTTTTATTTGAATGTAATATTTGGGACAATTATTC Sample 3. AAATCATGGTGGGTTTATTGATGGTTAGAAAGTTCC All the sample above, got 36 nucleotide. I want my output to count the G + C and GC %. So my output should look like this: Sample 1: G+C = 21 GC%= 58.33% Sample 2: G+C = 8 GC%=22.22% Sample 3: G+C = 13 GC%=36.11% Thanks and appreciate of your answer. |
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