# This is a paramfile for MicroDrop.
# The entire line after a '#' will be ignored.

###----Main Parameters----###

DATA_FILE     test_data     # Data file name (inlcude path if in a different directory)

INDS          200           # Number of individuals (must be a positive integer)

LOCI          300           # Number of loci (must be a positive integer)

NON_DATA_ROWS 1             # Number of non-data rows (must be a positive integer)

NON_DATA_COLS 1             # Number of non-data columns (must be a positive integer)

OUT_FOLDER    test_results  # Output folder name (will be created by the program)

TOLERANCE     0.001         # Tolerance for assessing the convergence (must be a nonnegative number)

MAX_ITER      10000         # Maximum number of EM iterations (must be a positive integer)

MAX_ALLELES   50            # Maximum number of distinct alleles (must be a positive integer)

N_PERMU       100           # Number of permutations (must be a positive integer)

N_REPS        3             # Number of EM replications (must be a positive integer)

N_IMPT        4             # Number of imputed datasets (must be a nonnegative integer)


###----Advanced Parameters----###

ASMPT        0              # Population-genetic assumption
                            # 0: inbreeding model
                            # 1: Hardy-Weinberg equilibrium

FCTR         0              # Dropout factor assumption
                            # 0: both sample-specific and locus-specific factors
                            # 1: only sample-specific factors
                            # 2: only locus-specific factors


###----Command line arguments----###

# -d DATA_FILE
# -i INDS
# -l LOCI
# -u NON_DATA_ROWS
# -v NON_DATA_COLS
# -o OUT_FOLDER
# -s TOLERANCE
# -t MAX_ITER
# -k MAX_ALLELES
# -x N_PERMU
# -r N_REPS
# -m N_IMPT
# -a ASMPT
# -f FCTR

###----End of file----###
