User:Karmella Haynes/Notebook/PcTF Genomics/2014/04/02: Difference between revisions
From OpenWetWare
Line 15: | Line 15: | ||
---- | ---- | ||
'''STAR analysis'''<br> | '''STAR analysis'''<br> | ||
* Refer to [http://openwetware.org/wiki/User:Karmella_Haynes/Notebook/PcTF_Genomics/2014/02/10 02/10/14] for the procedure | * Refer to [http://openwetware.org/wiki/User:Karmella_Haynes/Notebook/PcTF_Genomics/2014/02/10 02/10/14] for the procedure and Command parameters | ||
* Refer to [http://openwetware.org/wiki/User:Karmella_Haynes/Notebook/PcTF_Genomics/2011/12/19 12/19/11] for Hi-Seq parameters: fragment length (bioanalyzer result), read length | |||
* Command: java -jar STAR.jar 100 1 true .5 10 true test_data1.txt false false test_out 1 true 10 5 0 | |||
{| {{table}} | |||
|- | |||
| Parameter || Trail 1 | |||
|- | |||
| Extension length || fragment length 200 - read length 100 = '''100''' | |||
** Start coordinate = '''1''' | |||
** Right end inclusion = '''true''' | |||
** FDR cut-off = '''.5''' | |||
** Num perms = '''10''' | |||
** | |||
<!-- ##### DO NOT edit below this line unless you know what you are doing. ##### --> | <!-- ##### DO NOT edit below this line unless you know what you are doing. ##### --> | ||
|} | |} | ||
__NOTOC__ | __NOTOC__ |
Revision as of 13:37, 2 April 2014
Pc-TF Genomics | <html><img src="/images/9/94/Report.png" border="0" /></html> Main project page <html><img src="/images/c/c3/Resultset_previous.png" border="0" /></html>Previous entry<html> </html>Next entry<html><img src="/images/5/5c/Resultset_next.png" border="0" /></html> | ||||
04/02/14
STAR analysis
|