comment on

So basically I have this (brute-force attack):

    while(<>)
    {
        if($_=~/^(.*?)\t(.*)/)
        {
            $read_seq=$1;
            $read_id=$2;

            @split_read=split(//, $read_seq);
            $respective_read_letter=$split_read[$i];

            if($respective_read_letter eq 'A')
                {$count_A++;}
            elsif($respective_read_letter eq 'T')
                {$count_T++;}
            elsif($respective_read_letter eq 'C')
                {$count_C++;}
            elsif($respective_read_letter eq 'G')
                {$count_G++;}
            elsif($respective_read_letter eq '.')
                {$count_dot++;}
            else
                {print "ERROR in read: $read\t$respective_read_letter\
+n";}
        }
    }

    $total=$count_A+$count_T+$count_C+$count_G+$count_dot;

    $fraction_A = sprintf("%.2f", 100*($count_A/$total));
    $fraction_T = sprintf("%.2f", 100*($count_T/$total));
    $fraction_C = sprintf("%.2f", 100*($count_C/$total));
    $fraction_G = sprintf("%.2f", 100*($count_G/$total));
    $fraction_dot = sprintf("%.2f", 100*($count_dot/$total));
    print $actual_pos,"\t",$expected_letter,"\t",$fraction_A,"\t",$fra
+ction_T,"\t",$fraction_G,"\t",$fraction_C,"\t",$fraction_dot,"\n";
[download]

In reply to Re^2: Faster and more efficient way to read a file vertically by Anonymous Monk
in thread Faster and more efficient way to read a file vertically by Anonymous Monk

Are you posting in the right place? Check out Where do I post X? to know for sure.
Posts may use any of the Perl Monks Approved HTML tags. Currently these include the following:
<code> <a> <b> <big> <blockquote> <br /> <dd> <dl> <dt> <em> <font> <h1> <h2> <h3> <h4> <h5> <h6> <hr /> <i> <li> <nbsp> <ol> <p> <small> <strike> <strong> <sub> <sup> <table> <td> <th> <tr> <tt> <u> <ul>
Snippets of code should be wrapped in <code> tags not <pre> tags. In fact, <pre> tags should generally be avoided. If they must be used, extreme care should be taken to ensure that their contents do not have long lines (<70 chars), in order to prevent horizontal scrolling (and possible janitor intervention).
Want more info? How to link or How to display code and escape characters are good places to start.


XP is just a number
	PerlMonks