klugerlab Files

VDA: Validation Discrimination Analysis
version 0.1
      
Authors:
 Francesco Strino <francesco.strino@yale.edu>
 Fabio Parisi     <fabio.parisi@yale.edu>
 Yuval Kluger     <yuval.kluger@yale.edu>
 

Run as :
  java -server -jar VDA.jar [options]
     
where the options are:
    
 -i input_file    input format
 -o output_file   output file. (if stdout is specified no file is created, defaults to input_file.vda)
 -g               uses greedy algorithm
 -e               uses exhaustive algorithm (suggested for small input)
 -h               each row in the input file has a header that can be used for identification
 -1               indexes in the output (when h is not specified) are 1-based
 -0               indexes in the output (when h is not specified) are 0-based (default)
 -s seed          sets the seed of the random generator (ensures reproducibility of results)
     
Input file format for each line:
 [header] 0 1 0 1 0 1
 
 - specify -h if the first word is the header
 - characters [1ty] = true, characters [0fn] = false, the other characters are ignored
     


Output file format for each line:
  ID,h_min,preds 
    
where:
  - ID    = header (if -h specified), 0-based index of input line (default or -0), 1-based index of input line (-1)
  - h_min = minimum Hamming distance between algorithms after taking all experiments up to here
  - preds = comma-separated list of predictions (match input line)