Hi,
I have a folder that contains many (multiple) files
1.fasta
2.fasta
3.fasta
4.fasta
5.fasta
.
.
100's of files
Each such file have data in the following format
for example:
vi 1.fasta
I would like to edit these files such a way that the data below so that the file will look like
That is remove every thing after >AB_1 ..same with >AB_2....etc
Please let me know the best way to do it using awk or sed as I have to edit hundred's of files.
LA
when we are spooling query o/p to certain txt file,in that file how we can get headers in the query.(through unix shell scripting).
for exmple
q1="slect * from XXXXXX;";
sqlplus XXX/XXXX@XXXXX
spool XXXX.txt
$q1
spool off
in the text file i want the headers of the query.....
... (0 Replies)
Hi,
I'm trying to strip all lines between two headers in a file:
### BEGIN ###
Text to remove, contains all kinds of characters
...
Antispyware-Downloadserver.com (Germany)=http://www.antispyware-downloadserver.c
om/updates/
Antispyware-Downloadserver.com #2... (3 Replies)
Hi ,
I have a typical situation. I have 4 files and with different headers (number of headers is varible ).
I need to make such a merged file which will have headers combined from all files (comman coluns should appear once only).
For example -
File 1
H1|H2|H3|H4
11|12|13|14
21|22|23|23... (1 Reply)
Hi!
Trying to find string and then put the above Headers of corresponding fist line.
After executing a Property command a get this output:
SP/CH-CH Span Name Type TG Idle InUse OffHk OnHk Ring
-------- ------------------------------ ------ ---- ----- ----- -----
02/01-24 CARRIERSS7... (6 Replies)
I have a simple program to create a poker deck, shuffle it and deal cards. Here it is:
#include <stdio.h>
#include <stdlib.h>
#include <time.h>
struct Card {
char *face,
*suit;
};
void fillDeck (Card *deck, char *face, char *suit);
void shuffle (Card *deck);
void... (4 Replies)
Hey Guys,
Absolute neewbie here. I am trying to see if it is possible to edit headers/meta-data of files in Mac OSX. I am basically trying to change an audio file header to read 16bit instead of 24bit.
We have an issue with some of our software and it regularly exports 16bit audio files with... (3 Replies)
Hi,
I have a folder that contains many (multiple) files
1.fasta
2.fasta
3.fasta
4.fasta
5.fasta
.
.
100's of files
Each such file have data in the following format
for example:
vi 1.fasta
58 390
A
GTATACATTATTGATGAAGTCCACATGCTTTCTATGGGTGCCTTCAATGCGCTTTTAAAA (7 Replies)
I'm trying to pick up some Unix SysAdmin skills on my own outside of work through the use of the "Unix and Linux System Administrators Handbook." I've found the exercises to be very beneficial, until I came to this.... "What path did the email take? To Whom was it addressed, and to whom was it... (0 Replies)
Dear Guru's
I'm using Putty and want to edit a file. I know we generally use vi editor to do it. As I'm not good in using vi editor, I want to convert the vi into something like text pad. Is there any option in Putty to do the same ? Thanks for your response.
Srini (6 Replies)
Discussion started by: thummi9090
6 Replies
LEARN ABOUT DEBIAN
tfbs::patterngen::simplepfm
TFBS::PatternGen::SimplePFM(3pm) User Contributed Perl Documentation TFBS::PatternGen::SimplePFM(3pm)NAME
TFBS::PatternGen::SimplePFM - a simple position frequency matrix factory
SYNOPSIS
my @sequences = qw( AAGCCT AGGCAT AAGCCT
AAGCCT AGGCAT AGGCCT
AGGCAT AGGTTT AGGCAT
AGGCCT AGGCCT );
my $patterngen =
TFBS::PatternGen::SimplePFM->new(-seq_list=>@sequences);
my $pfm = $patterngen->pattern(); # $pfm is now a TFBS::Matrix::PFM object
DESCRIPTION
TFBS::PatternGen::SimplePFM generates a position frequency matrix from a set of nucleotide sequences of equal length, The sequences can be
passed either as strings, as Bio::Seq objects or as a fasta file.
This pattern generator always creates only one pattern from a given set of sequences.
new
Title : new
Usage : my $db = TFBS::PatternGen::SimplePFM->new(%args);
Function: the constructor for the TFBS::PatternGen::SimplePFM
object
Returns : a TFBS::PatternGen::SimplePFM obkect
Args : This method takes named arguments;
you must specify one of the following
-seq_list # a reference to an array of strings
# and/or Bio::Seq objects
# or
-seq_stream # A Bio::SeqIO object
# or
-seq_file # the name of the fasta file containing
# all the sequences
pattern
all_patterns
patternSet
The three above methods are used fro the retrieval of patterns, and are common to all TFBS::PatternGen::* classes. Please see
TFBS::PatternGen for details.
perl v5.14.2 2008-01-24 TFBS::PatternGen::SimplePFM(3pm)