Hi,
I was jus goin through a ebook on perl....it says u get binary installation for both unix and windows.....doesnt perl come already bundeled with unix ?cause i never installed any perl from binary........but i am able to execute perl programs......
Thanks and Regards
Vivek.S (1 Reply)
I need to process a file line-by-line using some value from a shell variable
Something like:perl -p -e 's/$shell_srch/$shell_replace/g' input.txt
I can't make the '-s' work in the '-p' or '-n' input loop (or couldn't find a syntaxis.)
I have searched and found... (4 Replies)
Hi everyone, and thank you for your help with this. I am VERY new with perl so all of your help is appreciated. I have tried google but as I don't know the proper terms to search for and could be daunting for a newbie scripter... I know this is very easy for most of you! Thanks!
I have a... (4 Replies)
hi,
can anybody explain me the below code. i am new to perl
==========================================
$o_dups{$1} = 1 if /^\w+\t.{19}\t(+),/;
==========================================
regards,
priyanka (2 Replies)
Hi friends,
Please see the below code carefully.
=======================================================
# Get batch date and Ord range
open OR,$ARGV;
while (<OR>) { # find the batch date
next if length $_ < 3; # BLANK LINE
# last if $. > 120; # sample should be good enough... (2 Replies)
I have a reference to a hash that contains some references. I was just wondering if there was a more simplistic Way of dereferencing the contained references without having to assign them to another reference like this:
my $href = shift; #some hash
my $temp = $href->{element};
print... (3 Replies)
Hi ,
I am having csv contains data
2011-08-23 11:11:00.074+0000: Info: Duplicate Order is not processed,Original Order Tuple
($category, $type) = split(',', $_ , 2);
what is the split function work here??
Thanks
Please start using code tags, thanks. (5 Replies)
Hi guys,
I think this is a basic question. I'm not very familiar with this.
I'm trying to round a number up and round a number down. From what I have read this can be done using POSIX. I have tried to to use this, but i'm getting errors:
sub findGridBounds($$$%)
{
use POSIX;
... (0 Replies)
Discussion started by: WongSifu
0 Replies
LEARN ABOUT DEBIAN
re-pcr
RE-PCR(1) General Commands Manual RE-PCR(1)NAME
re-PCR -- Find sequence tagged sites (STS) in DNA sequences
SYNOPSIS
re-PCR [-hV] -p hash-file [-g gaps] [-n mism] [-lq] [primer ...]
re-PCR [-hV] -P hash-file [-g gaps] [-n mism] [-l] [-m margin] [-O+|-] [-C batchcnt] [-o outfile] [-r+|-] [primers-file ...]
re-PCR [-hV] -s hash-file [-g gaps] [-n mism] [-lq] [-m margin] [-o outfile] [-r+|-] [left right lo[-hi] [...]]
re-PCR [-hV] -S hash-file [-g gaps] [-n mism] [-lq] [-m margin] [-O+|-] [-C batchcnt] [-o outfile] [-r+|-] [stsfile ...]
DESCRIPTION
Implements reverse searching (called Reverse e-PCR) to make it feasible to search the human genome sequence and other large genomes by per-
forming STS and primer searches.
OPTIONS -p=hash-file
Perform primer lookup using hash-file
-P=hash-file
Perform primer lookup using hash-file
-s=hash-file
Perform STS lookup using hash-file
-S=hash-file
Perform STS lookup using hash-file
-n=mism Set max allowed mismatches per primer for lookup
-g=gaps Set max allowed indels per primer for lookup
-m=margin Set variability for STS size for lookup
-l Use presize alignments (only if gaps>0)
-G Print alignments in comments
-d=min-max
Set default STS size
-r=+|- Enable/disable reverse STS lookup
-O=+|- Enable/disable syscall optimisation
-C=batchcnt
Set number of STSes per batch
-o=outfile
Set output file name
-q Quiet (no progress indicator)
EXAMPLE
famap -tN -b genome.famap org/chr_*.fa
fahash -b genome.hash -w 12 -f3 ${PWD}/genome.famap
re-PCR -s genome.hash -n1 -g1 ACTATTGATGATGA AGGTAGATGTTTTT 120-200
See famap(1) and fahash(1)SEE ALSO
/usr/share/doc/ncbi-epcr/README.txt
bioperl(1), e-pcr(1), famap(1) and fahash(1)AUTHORS
This manual page was written by Andreas Tille <tille@debian.org> for the Debian system (but may be used by others). Permission is granted
to copy, distribute and/or modify this document under the terms of the GNU General Public License, Version 2 any later version published by
the Free Software Foundation.
On Debian systems, the complete text of the GNU General Public License can be found in /usr/share/common-licenses/GPL.
April 2008 RE-PCR(1)