As the previous poster has said, you have not given us much to go on, but if you are just starting out and have nothing so far, here's a plan of attack for the problem

One way to do it is to write your own routine which would read FASTA format and then simply greps or counts the number of amino acids. This is not the recommended way however!

A better way is to look on CPAN and see if someone has done some or all of the work for you.Bio::DB:Fasta and Bio::SeqIO, FastaParse and Bio::Phylo::IO are all starting points for reading FASTA files and parsing FASTA data.

If you spot any bugs in my solutions, it's because I've deliberately left them in as an exercise for the reader! :-)

In reply to Re: Counting amino acids by space_monk
in thread Counting amino acids by yuvraj_ghaly

Title:
Use:  <p> text here (a paragraph) </p>
and:  <code> code here </code>
to format your post, it's "PerlMonks-approved HTML":


  • Posts are HTML formatted. Put <p> </p> tags around your paragraphs. Put <code> </code> tags around your code and data!
  • Titles consisting of a single word are discouraged, and in most cases are disallowed outright.
  • Read Where should I post X? if you're not absolutely sure you're posting in the right place.
  • Please read these before you post! —
  • Posts may use any of the Perl Monks Approved HTML tags:
    a, abbr, b, big, blockquote, br, caption, center, col, colgroup, dd, del, details, div, dl, dt, em, font, h1, h2, h3, h4, h5, h6, hr, i, ins, li, ol, p, pre, readmore, small, span, spoiler, strike, strong, sub, summary, sup, table, tbody, td, tfoot, th, thead, tr, tt, u, ul, wbr
  • You may need to use entities for some characters, as follows. (Exception: Within code tags, you can put the characters literally.)
            For:     Use:
    & &amp;
    < &lt;
    > &gt;
    [ &#91;
    ] &#93;
  • Link using PerlMonks shortcuts! What shortcuts can I use for linking?
  • See Writeup Formatting Tips and other pages linked from there for more info.