-
Notifications
You must be signed in to change notification settings - Fork 0
/
Copy pathsample.cfg
33 lines (28 loc) · 2.17 KB
/
sample.cfg
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
####################################################################################################
# #
# #
# Sample Configuration File for FBP #
# #
# #
####################################################################################################
DATA_FILE <data_file> # Data file with features to select
SCRATCH_DIR <scratch_dir> # Directoty for output
SOL_POOL_FILE <sol_pool_file> # File with the best and worst objective values from the solution pool of each pattern size
RUN_TAG <runt_tag> # Run tag appended to output file
RISK true # Set to true to find risk patterns, false to find protective patterns
NUM_CASES <num_cases> # The number of cases in the dataset
NUM_CTRLS <num_ctrls> # 100 # The number of controls in the dataset
NUM_EXPRS <num_exprs> # 4634 # The number of gene/protein expressions in the dataset
NUM_HEAD_ROWS 1 # The number of header rows in the dataset
NUM_HEAD_COLS 1 # The number of header columns in the dataset
MISSING_SYMBOL NA
MAX_PS <max_ps> # Maximum size patterns to find
USE_SOLUTION_POOL true # If true, then all patterns with objective values greater than
# or equal to SOLUTION_POOL_THRESHOLD will be found.
# If false, then only the optimal solution is guaranteed to be
# found.
HIGH_VALUE 1 # Value of HIGH region in expression data
NORM_VALUE 0 # Value of NORM region in expression data
LOW_VALUE -1 # Value of LOW region in expression data
SET_NA_TRUE true # Set true if NA expression data will result in all bins set to true
# Set false if NA expression data will result in all bins set to false