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 Here you will find descriptive information about the matrix of circuit/path values. Here you will find descriptive information about the matrix of circuit/path values.
  
-  * **Path values**: You can download the matrix of circuit values by clicking on //Circuit values//.+  * **Path values**: You can download the matrix of circuit values by clicking on //Path values//.
   * **Heatmap**: A heatmap is a graphical representation of the values of a matrix. A not-supervised clustering is performed on the data per columns (samples). A good separation between the two colors of the upper bar of the heatmap indicates that the differences between the two groups are big enough to discriminate between them.   * **Heatmap**: A heatmap is a graphical representation of the values of a matrix. A not-supervised clustering is performed on the data per columns (samples). A good separation between the two colors of the upper bar of the heatmap indicates that the differences between the two groups are big enough to discriminate between them.
   * **PCA**: A Principal Components Analysis is performed in order to see if the matrix contains information enough to separate between the two groups.    * **PCA**: A Principal Components Analysis is performed in order to see if the matrix contains information enough to separate between the two groups. 
   * **Path significance**: Ordered table of circuit significance. More significant circuits are displayed in the upper part of the table. For each circuit, the following information is shown:   * **Path significance**: Ordered table of circuit significance. More significant circuits are displayed in the upper part of the table. For each circuit, the following information is shown:
-    * **circuit/term**: Code identifying the circuit consisting in the name of the pathway to which it belongs, the initial node (if //Decompose paths// option was selected) and the effector (last) node of the path.+    * **circuit/term**: Code identifying the circuit consisting in the name of the pathway to which it belongs and the effector (last) node of the path (//pathway Name : Effector//).
     * **UP/DOWN**: Up when the circuit is up-regulated in the disease case, DOWN otherwise.     * **UP/DOWN**: Up when the circuit is up-regulated in the disease case, DOWN otherwise.
     * **statistic**: Statistic of the Wilcoxon test performed between conditions.     * **statistic**: Statistic of the Wilcoxon test performed between conditions.
     * **p.value**: P-value of the statistic test.     * **p.value**: P-value of the statistic test.
     * **FDRp.value**: Adjusted p-value of the statistic test using the FDR method.     * **FDRp.value**: Adjusted p-value of the statistic test using the FDR method.
 +    * **Fold Change**: is a measure describing how much the ** circuit activity** changes between conditions.[[https://en.wikipedia.org/wiki/Fold_change|reed more about Fold Change]]
 +    * **logFC**: The logarithm to base 2 of calculated Fold change.
path_values.1545854527.txt.gz · Last modified: 2018/12/26 20:02 by krian