Beefy Boxes and Bandwidth Generously Provided by pair Networks
Do you know where your variables are?
 
PerlMonks  

comment on

( [id://3333]=superdoc: print w/replies, xml ) Need Help??

I have received some great tips from here and on other forums. Some have suggested I should also read the DNA backwards, which is what I'll certainly do. That's easy with perl:

#!/usr/bin/perl # # Print a file backwards # open( FILE, "test.txt" ) or die( "Can't open file file_to_reverse: $!" ); @lines = reverse <FILE>; foreach $line (@lines) { $line = reverse $line; print $line; }

The claim that you can find any text in DNA, the Communist Manifesto or the entire works of Shakespeare is simply not true. When looking for a pattern, you simply can't find any text you want. You can prove it by writing a script that finds the entire works of Shakespeare in DNA. That should be easy to do in perl. You are not allowed to use a one time encryption pad, that is simply cheating. No algorithm can find the entire works of Shakespeare in DNA, no matter what encoding is used.

Some have suggested I should convert the DNA to bits and look there. That is a great idea, and I already wrote a script that converts DNA to bits. It reads A and T as a one and C and G as a zero and then adds up 7 bits at a time and outputs ascii characters. The challenge is to then find information in those characters which I have not yet done. Here's my script so far, I'm now using strict and warnings, learning all the time.

#!/usr/bin/perl # # Convert DNA to bits and see what comes out # use strict; use warnings; open my $fh, "<:encoding(UTF-8)", "Homo_sapiens.GRCh38.dna.chromosome. +2.fa" or die "$!\n"; # open my $fh, "<:encoding(UTF-8)", "test.txt" or die "$!\n"; my $bit = "0"; my $byte = ""; my $i = 0; while (read($fh, my $char, 1)) { # ignore all other characters, escpecially those annoying NNNNNNNN, + what are they anyway? if ($char =~ m/[ACGT]/ ) { # convert bases to bits, 6 possible way to do this if ($char eq "A") { $bit = "0"; } if ($char eq "C") { $bit = "1"; } if ($char eq "G") { $bit = "0"; } if ($char eq "T") { $bit = "1"; } # add one bit at a time up to a byte if ($i < 7) { $i++; $byte .= $bit; } else { $i = 0; # convert the byte to a string my $chars = length($byte); my @packArray = pack("B$chars",$byte); my $print = "@packArray"; # only print alphanumeric characters if ($print =~/[a-z]|[A-Z]/) { print "$print"; } $byte = ""; } } } print "\n";

In reply to Re: RFC: Is the Bible encoded in DNA? by wstryder
in thread RFC: Is the Bible encoded in DNA? by wstryder

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



  • 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.
Log In?
Username:
Password:

What's my password?
Create A New User
Domain Nodelet?
Chatterbox?
and the web crawler heard nothing...

How do I use this?Last hourOther CB clients
Other Users?
Others chanting in the Monastery: (4)
As of 2024-03-28 21:09 GMT
Sections?
Information?
Find Nodes?
Leftovers?
    Voting Booth?

    No recent polls found