1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
|
.. index:: cytoscape
*cytoscape_usage* -- Loading Results with Cytoscape
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
For this visualization, we will use the real edge table (:file:`real_edge_table.txt`) and real node file (:file:`real_node_table`).
The following are the directions to use once Cytoscape is installed and open:
1. File -> Import -> Network from Table
a. Select: "real_edge_table.txt" file
b. Click: Show Text File Import Options
c. Click: Transfer first line as attribute names
d. Select: Source Interaction = Column 1
e. Select: Target Interaction = Column 2
f. Click the headers for all other columns to import them (they will turn blue: note, might need to clicked more than once)
* As a result, you should get successful import message.
2. File -> Import -> Attribute from Table
a. Select: "real_node_table.txt" file
b. Click: Show Text File Import Options
c. Click: Transfer first line as attribute name
d. Click: Import
* As a result, you should get successful import message.
3. Click: VizMapper
* The user can set different properties, e.g. node color, by double-clicking.
* Select: as "Discrete Mapper"
* Select: Attribute to color by
* The user can also explore layouts by using Layout from the menu bar.
Note: some layouts will take a very long time to run on large datasets.
|
