This is the README for the JAVA-package of the logistic regression "Long Short-Term Memory" for DNA classification. :: License LICENSE, WARRANTY, AND LIABILITY This programm is freely available under the GNU General Public License (GPL). You should have received a copy of the GNU General Public License along with this program; if not, write to the Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA. :: Information LSTM logistic regression is stripped down LSTM which can be interpreted as logistic regression with the spectrum kernel for sequence classification. For any step in the DNA sequence and a given k a k-mer string vector is build and fed into the network. The LSTM architecture is just two memory cells and no input- or output gates. The memory cells are not connected with each other. The squashing function h is the identity function. For testing a DNA data set is included. :: Parameters Important parameters are set in the JLSTM.logreg.properties file. The command line parameters are the same as in the JLSTM (see README) :: Running (Unix environment) java -classpath "lib/biojava.jar:lib/bytecode.jar:jlstm.jar" at.jku.bioinf.jlstmlogregression.JLSTM -p JLSTM.logreg.properties -w wm.mat -t 4 (Windows environment) java -classpath "lib/biojava.jar;lib/bytecode.jar;jlstm.jar" at.jku.bioinf.jlstmlogregression.JLSTM -p JLSTM.logreg.properties -w wm.mat -t 4 This starts the logistic regression jLSTM with four threads (-t 4).