rbbt-dm 0.0.4 → 1.0.0

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Files changed (11) hide show
  1. data/lib/rbbt/network/paths.rb +47 -29
  2. data/lib/rbbt/plots/bar.rb +152 -0
  3. data/lib/rbbt/plots/heatmap.rb +63 -0
  4. data/lib/rbbt/statistics/fdr.rb +59 -29
  5. data/lib/rbbt/statistics/hypergeometric.rb +176 -72
  6. data/lib/rbbt/statistics/random_walk.rb +285 -42
  7. data/test/rbbt/network/test_paths.rb +3 -3
  8. data/test/rbbt/statistics/test_hypergeometric.rb +24 -2
  9. data/test/rbbt/statistics/test_random_walk.rb +39 -0
  10. data/test/test_helper.rb +1 -1
  11. metadata +95 -70
metadata CHANGED
@@ -1,75 +1,107 @@
1
- --- !ruby/object:Gem::Specification
1
+ --- !ruby/object:Gem::Specification
2
2
  name: rbbt-dm
3
- version: !ruby/object:Gem::Version
4
- hash: 23
3
+ version: !ruby/object:Gem::Version
4
+ version: 1.0.0
5
5
  prerelease:
6
- segments:
7
- - 0
8
- - 0
9
- - 4
10
- version: 0.0.4
11
6
  platform: ruby
12
- authors:
7
+ authors:
13
8
  - Miguel Vazquez
14
9
  autorequire:
15
10
  bindir: bin
16
11
  cert_chain: []
17
-
18
- date: 2012-01-13 00:00:00 Z
19
- dependencies:
20
- - !ruby/object:Gem::Dependency
12
+ date: 2012-12-21 00:00:00.000000000 Z
13
+ dependencies:
14
+ - !ruby/object:Gem::Dependency
21
15
  name: rbbt-util
22
- prerelease: false
23
- requirement: &id001 !ruby/object:Gem::Requirement
16
+ requirement: !ruby/object:Gem::Requirement
24
17
  none: false
25
- requirements:
26
- - - ">="
27
- - !ruby/object:Gem::Version
28
- hash: 3
29
- segments:
30
- - 0
31
- version: "0"
18
+ requirements:
19
+ - - ! '>='
20
+ - !ruby/object:Gem::Version
21
+ version: '0'
32
22
  type: :runtime
33
- version_requirements: *id001
34
- - !ruby/object:Gem::Dependency
35
- name: RubyInline
36
23
  prerelease: false
37
- requirement: &id002 !ruby/object:Gem::Requirement
24
+ version_requirements: !ruby/object:Gem::Requirement
25
+ none: false
26
+ requirements:
27
+ - - ! '>='
28
+ - !ruby/object:Gem::Version
29
+ version: '0'
30
+ - !ruby/object:Gem::Dependency
31
+ name: RubyInline
32
+ requirement: !ruby/object:Gem::Requirement
38
33
  none: false
39
- requirements:
40
- - - ">="
41
- - !ruby/object:Gem::Version
42
- hash: 3
43
- segments:
44
- - 0
45
- version: "0"
34
+ requirements:
35
+ - - ! '>='
36
+ - !ruby/object:Gem::Version
37
+ version: '0'
46
38
  type: :runtime
47
- version_requirements: *id002
48
- - !ruby/object:Gem::Dependency
39
+ prerelease: false
40
+ version_requirements: !ruby/object:Gem::Requirement
41
+ none: false
42
+ requirements:
43
+ - - ! '>='
44
+ - !ruby/object:Gem::Version
45
+ version: '0'
46
+ - !ruby/object:Gem::Dependency
49
47
  name: priority_queue
48
+ requirement: !ruby/object:Gem::Requirement
49
+ none: false
50
+ requirements:
51
+ - - ! '>='
52
+ - !ruby/object:Gem::Version
53
+ version: '0'
54
+ type: :runtime
50
55
  prerelease: false
51
- requirement: &id003 !ruby/object:Gem::Requirement
56
+ version_requirements: !ruby/object:Gem::Requirement
52
57
  none: false
53
- requirements:
54
- - - ">="
55
- - !ruby/object:Gem::Version
56
- hash: 3
57
- segments:
58
- - 0
59
- version: "0"
58
+ requirements:
59
+ - - ! '>='
60
+ - !ruby/object:Gem::Version
61
+ version: '0'
62
+ - !ruby/object:Gem::Dependency
63
+ name: distribution
64
+ requirement: !ruby/object:Gem::Requirement
65
+ none: false
66
+ requirements:
67
+ - - ! '>='
68
+ - !ruby/object:Gem::Version
69
+ version: '0'
60
70
  type: :runtime
61
- version_requirements: *id003
71
+ prerelease: false
72
+ version_requirements: !ruby/object:Gem::Requirement
73
+ none: false
74
+ requirements:
75
+ - - ! '>='
76
+ - !ruby/object:Gem::Version
77
+ version: '0'
78
+ - !ruby/object:Gem::Dependency
79
+ name: png
80
+ requirement: !ruby/object:Gem::Requirement
81
+ none: false
82
+ requirements:
83
+ - - ! '>='
84
+ - !ruby/object:Gem::Version
85
+ version: '0'
86
+ type: :runtime
87
+ prerelease: false
88
+ version_requirements: !ruby/object:Gem::Requirement
89
+ none: false
90
+ requirements:
91
+ - - ! '>='
92
+ - !ruby/object:Gem::Version
93
+ version: '0'
62
94
  description: Data-mining and statistics
63
95
  email: miguel.vazquez@fdi.ucm.es
64
96
  executables: []
65
-
66
97
  extensions: []
67
-
68
- extra_rdoc_files:
98
+ extra_rdoc_files:
69
99
  - LICENSE
70
- files:
100
+ files:
71
101
  - LICENSE
72
102
  - lib/rbbt/network/paths.rb
103
+ - lib/rbbt/plots/bar.rb
104
+ - lib/rbbt/plots/heatmap.rb
73
105
  - lib/rbbt/statistics/fdr.rb
74
106
  - lib/rbbt/statistics/hypergeometric.rb
75
107
  - lib/rbbt/statistics/random_walk.rb
@@ -78,46 +110,39 @@ files:
78
110
  - lib/rbbt/vector/model/svm.rb
79
111
  - test/rbbt/statistics/test_fdr.rb
80
112
  - test/rbbt/statistics/test_hypergeometric.rb
113
+ - test/rbbt/statistics/test_random_walk.rb
81
114
  - test/rbbt/vector/test_model.rb
82
115
  - test/rbbt/vector/model/test_svm.rb
83
116
  - test/rbbt/network/test_paths.rb
84
117
  - test/test_helper.rb
85
118
  homepage: http://github.com/mikisvaz/rbbt-phgx
86
119
  licenses: []
87
-
88
120
  post_install_message:
89
121
  rdoc_options: []
90
-
91
- require_paths:
122
+ require_paths:
92
123
  - lib
93
- required_ruby_version: !ruby/object:Gem::Requirement
124
+ required_ruby_version: !ruby/object:Gem::Requirement
94
125
  none: false
95
- requirements:
96
- - - ">="
97
- - !ruby/object:Gem::Version
98
- hash: 3
99
- segments:
100
- - 0
101
- version: "0"
102
- required_rubygems_version: !ruby/object:Gem::Requirement
126
+ requirements:
127
+ - - ! '>='
128
+ - !ruby/object:Gem::Version
129
+ version: '0'
130
+ required_rubygems_version: !ruby/object:Gem::Requirement
103
131
  none: false
104
- requirements:
105
- - - ">="
106
- - !ruby/object:Gem::Version
107
- hash: 3
108
- segments:
109
- - 0
110
- version: "0"
132
+ requirements:
133
+ - - ! '>='
134
+ - !ruby/object:Gem::Version
135
+ version: '0'
111
136
  requirements: []
112
-
113
137
  rubyforge_project:
114
- rubygems_version: 1.8.10
138
+ rubygems_version: 1.8.24
115
139
  signing_key:
116
140
  specification_version: 3
117
141
  summary: Data-mining and statistics
118
- test_files:
142
+ test_files:
119
143
  - test/rbbt/statistics/test_fdr.rb
120
144
  - test/rbbt/statistics/test_hypergeometric.rb
145
+ - test/rbbt/statistics/test_random_walk.rb
121
146
  - test/rbbt/vector/test_model.rb
122
147
  - test/rbbt/vector/model/test_svm.rb
123
148
  - test/rbbt/network/test_paths.rb