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comparison tools/regVariation/t_test_two_samples.xml @ 0:9071e359b9a3

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author xuebing
date Fri, 09 Mar 2012 19:37:19 -0500
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1 <tool id="t_test_two_samples" name="T Test for Two Samples" version="1.0.0">
2 <description></description>
3
4 <command interpreter="perl">
5 t_test_two_samples.pl $inputFile1 $inputFile2 $inputTestSidedness3 $inputStandardDeviationEquality4 $outputFile1
6 </command>
7
8 <inputs>
9 <param format="tabular" name="inputFile1" type="data" label="Select the first sample tabular file"/>
10 <param format="tabular" name="inputFile2" type="data" label="Select the second sample tabular file"/>
11
12 <param name="inputTestSidedness3" type="select" label="Choose the test sidedness:">
13 <option value="two-sided">Two-sided</option>
14 <option value="one-sided:_m1_less_than_m2">One-sided: m1 less than m2</option>
15 <option value="one-sided:_m1_greater_than_m2">One-sided: m1 greater than m2</option>
16 </param>
17
18 <param name="inputStandardDeviationEquality4" type="select" label="Choose the standard deviation equality status of the two populations:">
19 <option value="equal">Equal</option>
20 <option value="unequal">Unequal</option>
21 </param>
22 </inputs>
23
24 <outputs>
25 <data format="text" name="outputFile1"/>
26 </outputs>
27
28 <tests>
29 <test>
30 <param name="inputFile1" value="sample1.tabular" ftype="tabular" />
31 <param name="inputFile2" value="sample2.tabular" ftype="tabular" />
32 <param name="inputTestSidedness3" value="Two-sided" />
33 <param name="inputStandardDeviationEquality4" value="Equal" />
34 <output name="outputFile1" file="t_test_result1.text" />
35 </test>
36
37 <test>
38 <param name="inputFile1" value="sample1.tabular" ftype="tabular" />
39 <param name="inputFile2" value="sample2.tabular" ftype="tabular" />
40 <param name="inputTestSidedness3" value="Two-sided" />
41 <param name="inputStandardDeviationEquality4" value="Unequal" />
42 <output name="outputFile1" file="t_test_result2.text" />
43 </test>
44
45 <test>
46 <param name="inputFile1" value="sample1.tabular" ftype="tabular" />
47 <param name="inputFile2" value="sample2.tabular" ftype="tabular" />
48 <param name="inputTestSidedness3" value="One-sided: m1 less than m2" />
49 <param name="inputStandardDeviationEquality4" value="Equal" />
50 <output name="outputFile1" file="t_test_result3.text" />
51 </test>
52
53 <test>
54 <param name="inputFile1" value="sample1.tabular" ftype="tabular" />
55 <param name="inputFile2" value="sample2.tabular" ftype="tabular" />
56 <param name="inputTestSidedness3" value="One-sided: m1 less than m2" />
57 <param name="inputStandardDeviationEquality4" value="Unequal" />
58 <output name="outputFile1" file="t_test_result4.text" />
59 </test>
60
61 <test>
62 <param name="inputFile1" value="sample1.tabular" ftype="tabular" />
63 <param name="inputFile2" value="sample2.tabular" ftype="tabular"/>
64 <param name="inputTestSidedness3" value="One-sided: m1 greater than m2" />
65 <param name="inputStandardDeviationEquality4" value="Equal" />
66 <output name="outputFile1" file="t_test_result5.text" />
67 </test>
68
69 <test>
70 <param name="inputFile1" value="sample1.tabular" ftype="tabular" />
71 <param name="inputFile2" value="sample2.tabular" ftype="tabular" />
72 <param name="inputTestSidedness3" value="One-sided: m1 greater than m2" />
73 <param name="inputStandardDeviationEquality4" value="Unequal" />
74 <output name="outputFile1" file="t_test_result6.text" />
75 </test>
76 </tests>
77
78
79 <help>
80
81 .. class:: infomark
82
83 **What it does**
84
85 This program implements the non-pooled t-test for two samples where the alternative hypothesis is two-sided or one-sided. The program takes four inputs:
86
87 - The first input file is a TABULAR format file representing the first sample and consisting of one column only.
88 - The second input file is a TABULAR format file representing the first sample and consisting of one column only.
89 - The third input is the sidedness of the t-test: either two-sided or, one-sided with m1 less than m2 or, one-sided with m1 greater than m2.
90 - The fourth input is the equality status of the standard deviations of both populations.
91 - The output file is a TXT file representing the result of the two-sample t-test.
92
93
94 **Example**
95
96 Let us have the first input file representing the first sample as follows::
97
98 5
99 4
100 8
101 6
102 7
103 2
104 1
105 1
106 0
107 6
108 4
109 5
110 7
111 5
112 3
113 2
114 5
115 8
116 7
117 6
118 4
119
120 And the second input file representing the second sample as follows::
121
122 2
123 3
124 5
125 1
126 2
127 7
128 5
129 4
130 3
131 2
132 7
133 6
134 0
135 8
136 4
137 6
138 9
139 2
140 4
141 5
142 6
143
144 Runnig the program and choosing "Two-sided" and "Equal" as parameters will give the following output::
145
146 Two Sample t-test
147
148 data: sample1 and sample2
149 t = -0.3247, df = 40, p-value = 0.7471
150 alternative hypothesis: true difference in means is not equal to 0
151 95 percent confidence interval:
152 -1.720030 1.243839
153 sample estimates:
154 mean of x mean of y
155 4.333333 4.571429
156
157
158 </help>
159
160 </tool>