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Have to check in a file that the lines starting with 620 and 705
are ending at same posiotin.
82012345
62023232323
70523949558
62023255454
9999
In the above lines, i have to check the lines starting... (1 Reply)
I Have to check in a file that all the lines are ending at same posiotin.
Ex : line 1 is ending at position 88
line 2 should at same position i.e 88
Thanks in advance (6 Replies)
I have file format like below and I'm trying to modify this file.
I need to add 'ENDEND' end of each record.
01 ASH01 1CTCTL EDPPOO STAND
01 ASH08 0020 A1TH 101
01 ASH09 0022 A1TH 102
01 ASH09 0022 A1TH 103
01 ASH02 2CTCTL ... (5 Replies)
Hi,
I am a newbie in unix programming so maybe this is a simple question.
I would like to know how can I make a script that outputs only the values that are not between any given start and end positions
Example
file1:
2 30
40 80
82 100
file2:
ID1 1
ID2 35
ID3 80
ID4 81
ID6... (9 Replies)
Hi,
Having a following file's content, lets say:
ABC|ANA|LDJ|||||DKD||||||
AJJ|KKDD||KKDK||||||||||||
KKD||KD|||LLLD||||LLD|||||
Problem:
Need to replace pipes from 8th occurrence of pipe till end.
so the result should be:
ABC|ANA|LDJ|||||DKD
AJJ|KKDD||KKDK||||
-------
-------
... (12 Replies)
I want to remove the trailing spaces at the end of each line starting from a particular position(using ksh script). For example, in the attached file, I want to remove all the spaces starting from the position 430 till the end. The space has to be removed only from the 430th position no matter in... (3 Replies)
I have a need to calculate when British Summer Time starts and ends. After messing around, the following seems to work in Bash.
echo `date +%Y`-03-`cal 3 \`date +%Y\` | grep -oE "^]{2}" | tail
-1`T01:00:00Zand
echo `date +%Y`-03-`cal 10 \`date +%Y\` | grep -oE "^]{2}" | tail ... (10 Replies)
Hi, I have a file1 of many long sequences, each preceded by a unique header line. file2 is 3-columns list: headers name, start position, end position. I'd like to extract the sequence region of file1 specified in file2.
Based on a post elsewhere, I found the code:
awk... (2 Replies)
Hi,
I am trying to remove lines once a string is found till another string is found including the start string and end string. I want to basically grab all the lines starting with color (closing bracket). PS: The line after the closing bracket for color could be anything (currently 'more').... (1 Reply)
Below are my custom period start and end dates based on a calender, these dates are placed in a file, for each period i need to split into three weeks for each period row, example is given below.
Could you please help out to achieve solution through shell script..
File content:
... (2 Replies)
Discussion started by: nani2019
2 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)