I have written a rather simplistic script so I can get used to
LWP::Simple etc... Anyway I am using a subroutine to "get" and "print"
data from a website. I have gotten it to work except for the fact that
the first iteration of the subroutine "uses" no data at all, yet after
that it works f
know if I have any trouble.
-Cheers!
-Mike
On Oct 15, 2004, at 7:22 AM, Errin Larsen wrote:
On Thu, 14 Oct 2004 16:11:42 -0600, Michael Robeson <[EMAIL PROTECTED]>
wrote:
Yeah, I have just submitted that same question verbatim to the
bio-perl
list. I am still running through some ideas tho
Yeah, I have just submitted that same question verbatim to the bio-perl
list. I am still running through some ideas though. I have both
Bioinformatics perl books. They are not very effective teaching books.
The books spend too much time on using modules. Though while I
understand the usefulness
Here is as far as I can get with some real code and pseudo code. This
is just to show you that I am actually trying. :-)
Pseudo - code
# open DNA sequence file
print "Enter in the name of the DNA sequence file:\n";
chomp (my $dna_s
I have a set of data that looks something like the following:
>human
acgtt---cgatacg---acgact-t
>chimp
acgtacgatac---actgca---ac
>mouse
acgata---acgatcgacgt
I am having trouble setting up a hash etc., to count the number and
types of continuous gaps. For example the 'human' sequence above
Gunnar,
Thanks so much for the help and the links! They help quit a bit. I
decided to use the if statement you posted:
if ( $aa eq '-' ) {
$hash3{$_} .= '---';
} else {
$hash3{$_} .= substr $dna,0,3,'';
}
instead of:
$hash3{$_} .= $
**Sorry, if this is a repeat. Wasn't sure if the mail went through. If you already replied can you re-send it to my e-mail address above as well? Thanks!***
I have two sets of data that have been stored in hashes. The first hash
has amino-acid (protein) sequence data. The second hash has the
c
Sorry, I meant to upload this script (see below). However, I have one
last question. Why can't I use
s/\n//g;# instead of
tr/A-Za-z-//cd;
in the script below? I thought it would be simpler to remove the
newline characters from $_ which is all I really want to do. However,
most of the time
Thanks to those that helped. The code works great. Now I will practice
one honing it down to the bare essentials. Below is the final code you
all helped with.
-Thanks a million!
-Mike
>>> Begin PERL Code<<<
#! /usr/bin/perl -w
use strict;
use FileHandle;
my %organisms;
print "Enter in a list of
Ok great. Most of what you show does make sense. However, there are
some bits of code that I need further clarification with. Some bits I
am able to tell what they are doing but I do not quite know how or why
they work they way they do. I'll state these areas in the code we've
got together at t
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