[2] | 1 | <tool id="generate_matrix_for_pca_and_lda1" name="Generate A Matrix"> |
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| 2 | <description>for using PC and LDA</description> |
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| 3 | <command interpreter="perl">generate_matrix_for_pca_lda.pl $input_1 $input_2 $output</command> |
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| 4 | |
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| 5 | <inputs> |
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| 6 | <param format="tabular" name="input_1" type="data" label="Source file First: a matrix (samples/observations in rows and variables/features in columns)"> </param> |
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| 7 | <param format="tabular" name="input_2" type="data" label="Source file Second: a table (samples/observations with response/class label)"> </param> |
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| 8 | </inputs> |
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| 9 | |
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| 10 | <outputs> |
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| 11 | <data format="tabular" name="output" /> |
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| 12 | </outputs> |
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| 13 | |
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| 14 | <tests> |
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| 15 | <test> |
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| 16 | <param name="input_1" value="matrix_generator_for_pc_and_lda_input_1.tabular"/> |
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| 17 | <param name="input_2" value="matrix_generator_for_pc_and_lda_input_2.tabular"/> |
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| 18 | <output name="output" file="matrix_generator_for_pc_and_lda_output.tabular"/> |
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| 19 | </test> |
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| 20 | </tests> |
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| 21 | |
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| 22 | <help> |
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| 23 | |
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| 24 | .. class:: infomark |
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| 25 | |
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| 26 | **What it does** |
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| 27 | |
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| 28 | This tool consists of a module to generate a matrix to be used for running the Linear Discriminant Analysis as described in Carrel et al., 2006 (PMID: 17009873) |
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| 29 | |
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| 30 | *Carrel L, Park C, Tyekucheva S, Dunn J, Chiaromonte F, et al. (2006) Genomic Environment Predicts Expression Patterns on the Human Inactive X Chromosome. PLoS Genet 2(9): e151. doi:10.1371/journal.pgen.0020151* |
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| 31 | |
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| 32 | ----- |
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| 33 | |
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| 34 | **Example** |
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| 35 | |
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| 36 | - Input file (Source file First) |
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| 37 | |
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| 38 | .. image:: ../static/images/tools/lda/first_matrix_generator_example_file.png |
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| 39 | |
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| 40 | |
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| 41 | - Input file (Source file Second) |
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| 42 | |
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| 43 | .. image:: ../static/images/tools/lda/second_matrix_generator_example_file.png |
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| 44 | |
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| 45 | |
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| 46 | </help> |
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| 47 | |
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| 48 | </tool> |
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