MOODS::Tools - Some useful tools to work with parameters and results of PWM search.
Title : readMatrix
Usage : my $matrix = readMatrix("matrixfile");
Function: reads a matrix from file
Returns : matrix
Args : filename
Title : printMatrix
Usage : my $matrix = readMatrix("matrixfile");
printMatrix($matrix)
Function: prints matrix
Args : matrix reference
Title : reverseComplement Usage : my $matrix2 = reverseComplement($matrix1); Args : matrix reference
Title : numResults
Usage : my @results = MOODS::search(..);
$num_results = numResults(@results[0]);
Function: calculates a number of matches
Args : an array reference to result array
Title : getResult
Usage : my @results = MOODS::search(..);
$num_results = numResults($results[0]);
foreach $i (0..$num_results) {
my ($pos, $score) = getResult($results[0], $i);
}
Function: gets a position score pair from a result array
Args : a result array and an index
Title : printResults
Usage : my @results = MOODS::search(..);
printResults($results[0]);
Function: print a result array
Args : an array reference to result array
Petri J Martinmaki, Janne H Korhonen
This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
You should have received a copy of the GNU General Public License along with this program. If not, see http://www.gnu.org/licenses/