Differences

This shows you the differences between two versions of the page.

--- filling_in_a_tool_form [2015/12/18 14:50] – created mhidalgo
+++ filling_in_a_tool_form [2017/05/24 15:27] (current) – external edit 127.0.0.1
@@ Line 1: / Line 1: @@
 ====== Filling in a tool form ======
-HiPathia integrates two different pathway tools: **Differential signaling** and **Prediction**. Both pathways tools can be accessed from the main menu bar, by clicking on their respective names (see [[workflow|Workflow]]).
+HiPathia integrates two different pathway tools: **Differential signaling** and **Prediction**. Both pathway tools can be accessed from the main menu bar, by clicking on their respective names (see [[workflow|Workflow]]).
 The main page of a pathway tool is its filling in form. This form includes all the information and parameters that the tool needs to process a job. The form is divided in different panels:
-  * **Input data**:
+  * Input data
+  * Design data
+  * Species
+  * Parameters
+  * Pathways
+  * Job information
+==== Input data ====
+In the input data panel, we must introduce the expression data and, optionally, the variant data.
+The **expression data** can be either an:
+  * Expression matrix provided by yourself (see how to upload files in [[upload_your_data|Upload your data]]), or
+  * Expression vector taken from an expression database. In this case, we must choose the tissue database and tissue names.
+The **variant data** must be a VCF file.
+==== Design data ====
+The design data panel allows you to choose the kind of experiment you want to perform. You can choose between two main experimental designs:
+  * **Two group comparison**:
+  * **Correlation with continuous variable**:
+===== Launching a job =====