Reusable Deep Neural Networks:

Applications to Biomedical Data

Available dataset for the Baseline approach

All datasets

If you want to use your own data. Please check Datasets link.

Generate script to run BASELINE

Enter target dataset details for the experimnet

Path of the dataset located in Theano pickled format
Target dataset
Path to store the results
File name of the console output
Enter number times to repeate the experiment
Enter the GPU number to use

Enter Stacked Denoising Autoencoders training parameters

Fine-tuning learning rate
Max number of Fine-tuning epochs
Pre-training learning rate
Max number of Pre-training epochs
Number of neurons at each hidden layer comma seperated for each layer eg: [500,500,500]
Mini batch size
Random initial seed number
Fraction of the total training data

Now Copy and Paste the following into terminal and hit return to run experiment:


taskset -c 0 nohup python online_input.py BL target_data data_path fold results_dir nr_reps gpu_nr finetune_lr training_epochs pretrain_lr pretraining_epochs hidden_layers_sizes batch_size rng_seed training_data_fraction > results_dir result_file_name 2>&1 &