Mercurial > repos > greg > cwpair2
comparison cwpair2.py @ 6:001551406848 draft
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author | greg |
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date | Tue, 24 Nov 2015 08:15:48 -0500 |
parents | 430a5bdc55a3 |
children | 6469dda597d6 |
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5:2e0ddcc726f9 | 6:001551406848 |
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25 parser.add_argument('--binsize', dest='binsize', type=int, default=1, help='Width of bins for plots and mode.') | 25 parser.add_argument('--binsize', dest='binsize', type=int, default=1, help='Width of bins for plots and mode.') |
26 parser.add_argument('--threshold_format', dest='threshold_format', help='Percentage to filter the 95th percentile.') | 26 parser.add_argument('--threshold_format', dest='threshold_format', help='Percentage to filter the 95th percentile.') |
27 parser.add_argument('--relative_threshold', dest='relative_threshold', type=float, default=0.0, help='Percentage to filter the 95th percentile.') | 27 parser.add_argument('--relative_threshold', dest='relative_threshold', type=float, default=0.0, help='Percentage to filter the 95th percentile.') |
28 parser.add_argument('--absolute_threshold', dest='absolute_threshold', type=float, default=0.0, help='Absolute value to filter.') | 28 parser.add_argument('--absolute_threshold', dest='absolute_threshold', type=float, default=0.0, help='Absolute value to filter.') |
29 parser.add_argument('--output_files', dest='output_files', default='simple', help='Restrict output dataset collections.') | 29 parser.add_argument('--output_files', dest='output_files', default='simple', help='Restrict output dataset collections.') |
30 parser.add_argument('--sort_chromosome', dest='sort_chromosome', default='asc', help='Sort output by chromosome.') | |
31 parser.add_argument('--sort_score', dest='sort_score', default='no', help='Sort output by score.') | 30 parser.add_argument('--sort_score', dest='sort_score', default='no', help='Sort output by score.') |
32 parser.add_argument('--statistics_output', dest='statistics_output', help='Statistics output file.') | 31 parser.add_argument('--statistics_output', dest='statistics_output', help='Statistics output file.') |
33 args = parser.parse_args() | 32 args = parser.parse_args() |
34 | 33 |
35 cwpair2_util.create_directories(args.method) | 34 cwpair2_util.create_directories(args.method) |
48 threshold, | 47 threshold, |
49 args.up_distance, | 48 args.up_distance, |
50 args.down_distance, | 49 args.down_distance, |
51 args.binsize, | 50 args.binsize, |
52 args.output_files, | 51 args.output_files, |
53 args.sort_chromosome, | |
54 args.sort_score) | 52 args.sort_score) |
55 statistics.extend(stats) | 53 statistics.extend(stats) |
56 # Accumulate statistics. | 54 # Accumulate statistics. |
57 by_file = {} | 55 by_file = {} |
58 for stats in statistics: | 56 for stats in statistics: |