Hey guys,
I have this file generated by me... i want to create some HTML output from it.
The problem is that i am really confused about how do I go about reading the file.
The file is in the following format:
TID1 Name1 ATime=xx AResult=yyy AExpected=yyy BTime=xx BResult=yyy... (8 Replies)
Hi All
I would like to merge multiple files with the same row and column size into a matrix format
In a folder I have multiple files in the following format
vi 12.txt
a 1
b 5
c 7
d 0
vi 45.txt
a 3
b 6
c 9
d 2
vi 9.txt
a 4 (7 Replies)
Hi all,
Is there a way to convert full data matrix to linearised left data matrix?
e.g full data matrix
Bh1 Bh2 Bh3 Bh4 Bh5 Bh6 Bh7
Bh1 0 0.241058 0.236129 0.244397 0.237479 0.240767 0.245245
Bh2 0.241058 0 0.240594 0.241931 0.241975 ... (8 Replies)
Hi everyone
I am very new at awk but think that that might be the best strategy for this. I have a matrix very similar to a correlation matrix and in practical terms I need to convert it into a list containing the values from the matrix (one value per line) with the first field of the line (row... (5 Replies)
Hi,
I do have couple of files in a folder. The names of each of the files have a pattern.
ahet_005678.txt
ahet_005898.txt
ahet_007678.txt
ahet_004778.txt
...
...
ahet_002378.txt
Each of the above files have the same pattern of data with 4 columns and have an header for the last 3... (4 Replies)
Hi All
I do have a matrix in the following format
a_2 a_3 s_4 t_6
b 0 0.9 0.004 0
c 0 0 1 0
d 0 0.98 0 0
e 0.0023 0.96 0 0.0034
I have thousands of rows
I would like to parse the maximum value in each of the row and out put that highest value along the column header of... (2 Replies)
I do have a large matrix of the following format and it is tab delimited
ch-ab1-20 ch-bb2-23 ch-ab1-34 ch-ab1-24 er-cc1-45 bv-cc1-78
ch-ab1-20 0 2 3 4 5 6
ch-bb2-23 3 0 5 ... (6 Replies)
Discussion started by: Kanja
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)