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comparison segToMatrix.xml @ 60:bf57076e27b9 default tip

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change genomicSegment input data
author jingchunzhu@gmail.com
date Tue, 27 Oct 2015 16:07:09 -0700
parents 2a240b005731
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59:b88b95642f59 60:bf57076e27b9
29 29
30 **Given a segmented copy number data file, convert it into xena ready matrix file.** 30 **Given a segmented copy number data file, convert it into xena ready matrix file.**
31 31
32 1. Input data file format: tab-deliminated 32 1. Input data file format: tab-deliminated
33 33
34 ======= ===== ======= ===== ====== ====== 34 ======= ===== ======= ===== ======
35 sample chr start end strand value 35 sample chr start end value
36 ======= ===== ======= ===== ====== ====== 36 ======= ===== ======= ===== ======
37 sample1 chr1 1 100 . 0.5 37 sample1 chr1 1 100 0.5
38 sample2 chr1 101 1000 . 1.5 38 sample2 chr1 101 1000 1.5
39 sample3 chr1 1000 2000 . -0.5 39 sample3 chr1 1000 2000 -0.5
40 ... ... ... ... ... ... 40 ... ... ... ... ...
41 ======= ===== ======= ===== ====== ====== 41 ======= ===== ======= ===== ======
42 42
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44 2. Output File no 1. matrix file 44 2. Output File no 1. matrix file
45 45
46 Output File no 2. probeMap file -- probe to gene mapping file (is in the same genome assembly as the input segmented copy number data) 46 Output File no 2. probeMap file -- probe to gene mapping file (is in the same genome assembly as the input segmented copy number data)