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added fixes from Brad Langhorst; https://bitbucket.org/account/notifications/read/3443176/patch-for-proportional-venn-tool-in-galaxy; added tool_dependencies for Mako template untested
author Ido Tamir <ido.tamir@imp.ac.at>
date Mon, 24 Sep 2012 16:46:21 +0200
parents 8ea9b4e5a389
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0:8ea9b4e5a389 1:cc6707a1e044
9 cli interface expects all arguments for the inputs concatenated 9 cli interface expects all arguments for the inputs concatenated
10 with , i.e. file1,file2,file3 ... 10 with , i.e. file1,file2,file3 ...
11 11
12 contains an integration test for the cli interface (vennerTest.py), no galaxy unit tests. 12 contains an integration test for the cli interface (vennerTest.py), no galaxy unit tests.
13 13
14 14 CLI example:
15 python venner.py --files testFiles/fileA.tab,testFiles/fileB.tab --columns 1,1 --outname out.html --asNames As,Bs
15 16
16 Proportional Venn Diagram: 17 Proportional Venn Diagram:
17 -------------------------- 18 --------------------------
18 Creates a proportional Venn diagram from 2 or 3 tab delimited input files. 19 Creates a proportional Venn diagram from 2 or 3 tab delimited input files.
19 The 0 based column index decides which column is used for extracting the sets to compare between the files. 20 The 0 based column index decides which column is used for extracting the sets to compare between the files.
24 - 2-3 tab delimited input files. 25 - 2-3 tab delimited input files.
25 - 0 based index of the columns to extract for each file 26 - 0 based index of the columns to extract for each file
26 27
27 Outputs: 28 Outputs:
28 -------- 29 --------
29 - Html page with the proportional Venn diagram and a table for the counts in each section. 30 - Html page with the proportional Venn diagram and a table for the counts in each set.
30 31
31 32