SOCR EduMaterials AnalysesCommandLineFisherExact - Revision history

WikiSysop at 14:57, 5 March 2014

2014-03-05T14:57:28Z

WikiSysop at 14:56, 5 March 2014

2014-03-05T14:56:16Z

IvoDinov: /* Example Input data files */

2009-06-13T01:07:58Z

‎Example Input data files

IvoDinov at 01:06, 13 June 2009

2009-06-13T01:06:19Z

IvoDinov at 00:30, 3 December 2008

2008-12-03T00:30:36Z

Teresalam: /* Fisher Exact Test Usage */

2008-03-11T20:48:36Z

‎Fisher Exact Test Usage

Teresalam at 20:48, 11 March 2008

2008-03-11T20:48:09Z

Teresalam at 21:51, 6 March 2008

2008-03-06T21:51:05Z

Teresalam: New page: This page includes the information on how to access the [http://socr.ucla.edu/htmls/SOCR_Analyses.html Friedman Test] library via shell-based command-line interface on local machines. More...

2008-03-06T21:50:27Z

New page: This page includes the information on how to access the [http://socr.ucla.edu/htmls/SOCR_Analyses.html Friedman Test] library via shell-based command-line interface on local machines. More...

New page

This page includes the information on how to access the [http://socr.ucla.edu/htmls/SOCR_Analyses.html Friedman Test] library via shell-based command-line interface on local machines. More information about [[SOCR_EduMaterials_AnalysesCommandLine | other SOCR Analyses command-line interfaces is available here]].

== Introduction ==
In addition to the graphical user interfaces, via a web-browser, all [http://socr.ucla.edu/htmls/SOCR_Analyses.html SOCR Analyses] allow command-line shell execution on local systems.

==General Usage==
* Get the latest SOCR JAR files from the SOCR page (http://socr.ucla.edu/htmls/jars/).
* The command-line interface to SOCR Analyses generally uses '''EXAMPLE 1''' from the list of example data files for the corresponding analysis.
* All Input files are ASCII (see examples within each of the specific analyses).
* a '''-h''' flag at the end of the command-line indicates that the first row in all ASCII input data files is a '''HEADER''' row (so it's not interpreted as data)
* Number of variables have to be indicated at the end (after '''-h''' flag). If no number of variable is included, 5 is set defaulted.

==Friedman Test Usage==
* Generic Setting:
<code>
java -cp [SOCRjar_location]/SOCR_core.jar:[SOCRjar_location]/SOCR_plugin.jar edu.ucla.stat.SOCR.analyses.command.TwoIndependentFriedmanCSV [data_location]/f.txt -h [number_of_variables] 5
</code>

* Example: Edit a new file (TwoIndependentFriedmanCSV.csh) using any editor and paste this inside (make sure the file has executable permisions). Some operating systems/platforms may require variants of this (C-shell) script.
<code>#!/bin/csh</code>

<code>date</code>

<code>java -cp /cxfs/ccb/CCB_SW_Tools/others/Statistics/SOCR_Statistics/bin/SOCR_core.jar:/
cxfs/ccb/CCB_SW_Tools/others/Statistics/SOCR_Statistics/bin/SOCR_plugin.jar edu.ucla.
stat.SOCR.analyses.command.TwoIndependentFriedmanCSV /cxfs/ccb/CCB_SW_Tools/others/Statist
ics/SOCR_Statistics/SOCR_CSV_test_Scripts_Data/f.txt -h 5</code>

<code>date</code>

<code>exit</code>

==Example Input data files==
One test datafile is included with the SOCR analyses command-line distribution (f.txt'''). The ASCII content of each of these is included below. Note that the first lines in these files are column headers. This requires the "-h" flag at the end of the command line execution so that these first lines are interpreted as column headers.

<center>
{| class="wikitable" style="text-align:center" border="1" cellpadding="2"
|-
!
!
!
! f.txt
!
|-
| A
| B
| C
| D
| E
|-
| 5.0
| 4.0
| 7.0
| 10.0
| 12.0
|-
| 1.0
| 3.0
| 1.0
| 0.0
| 2.0
|-
| 16.0
| 12.0
| 22.0
| 22.0
| 35.0
|-
| 5.0
| 4.0
| 3.0
| 5.0
| 4.0
|-
| 10.0
| 9.0
| 7.0
| 13.0
| 10.0
|-
| 19.0
| 18.0
| 18.0
| 37.0
| 58.0
|-
| 10.0
| 7.0
| 6.0
| 8.0
| 7.0
|}
</center>

{{translate|pageName=http://wiki.stat.ucla.edu/socr/index.php?title=SOCR_EduMaterials_AnalysesCommandLineTwoIndependentFriedman}}

@@ Line 28: / Line 28: @@
 ==Example Input data files==
-One test datafile is included with the SOCR analyses command-line distribution ('''f.txt'''). The ASCII content of each of these is included below. Note that the first lines in these files are column headers. This requires the "-h" flag at the end of the command line execution so that these first lines are interpreted as column headers.
+One test datafile is included with the SOCR analyses command-line distribution ('''f.txt'''). The ASCII content of each of these is included below.
 <center>
@@ Line 34: / Line 34: @@
 |-
 ! colspan=5 | f.txt
 |-
 | 5.0
 | 4.0
 |-
 | 1.0
 | 3.0
 |}
 </center>
 {{translate|pageName=http://wiki.stat.ucla.edu/socr/index.php?title=SOCR_EduMaterials_AnalysesCommandLineFisherExact}}

@@ Line 8: / Line 8: @@
 * The command-line interface to SOCR Analyses generally uses '''EXAMPLE 1''' from the list of example data files for the corresponding analysis.
 * All Input files are ASCII (see examples within each of the specific analyses).
 ==Fisher Exact Test Usage==
 * Generic Setting:
 <code>
-java -cp [SOCRjar_location]/SOCR_core.jar:[SOCRjar_location]/SOCR_plugin.jar edu.ucla.stat.SOCR.analyses.command.FisherExactCSV [data_location]/f.txt -h [number_of_variables] 5
+java -cp [SOCRjar_location]/SOCR_core.jar:[SOCRjar_location]/SOCR_plugin.jar edu.ucla.stat.SOCR.analyses.command.FisherExactCSV [data_location]/f.txt
 </code>
@@ Line 23: / Line 21: @@
 <code>java -cp /ifs/ccb/CCB_SW_Tools/others/Statistics/SOCR_Statistics/bin/SOCR_core.jar:/
-ifs/ccb/CCB_SW_Tools/others/Statistics/SOCR_Statistics/bin/SOCR_plugin.jar edu.ucla.stat.SOCR.analyses.command.FisherExactCSV /ifs/ccb/CCB_SW_Tools/others/Statistics/SOCR_Statistics/SOCR_CSV_test_Scripts_Data/f.txt -h 5</code>
+ifs/ccb/CCB_SW_Tools/others/Statistics/SOCR_Statistics/bin/SOCR_plugin.jar edu.ucla.stat.SOCR.analyses.command.FisherExactCSV /ifs/ccb/CCB_SW_Tools/others/Statistics/SOCR_Statistics/SOCR_CSV_test_Scripts_Data/f.txt</code>
 <code>date</code>

@@ Line 1: / Line 1: @@
-This page includes the information on how to access the [http://socr.ucla.edu/htmls/SOCR_Analyses.html Fisher Exact Test] library via shell-based command-line interface on local machines. More information about [[SOCR_EduMaterials_AnalysesCommandLine | other SOCR Analyses command-line interfaces is available here]].
+This page includes the information on how to access the [http://en.wikipedia.org/wiki/Fisher%27s_exact_test Fisher Exact Test] library via shell-based command-line interface on local machines. More information about [[SOCR_EduMaterials_AnalysesCommandLine | other SOCR Analyses command-line interfaces is available here]].
 == Introduction ==
@@ Line 9: / Line 9: @@
 * All Input files are ASCII (see examples within each of the specific analyses).
 * a '''-h''' flag at the end of the command-line indicates that the first row in all ASCII input data files is a '''HEADER''' row (so it's not interpreted as data)
-* Number of variables have to be indicated at the end (after '''-h''' flag). If no number of variable is included, 5 is set defaulted.
+* Number of variables have to be indicated at the end (after '''-h''' flag). If no number of variables is included, 5 is set as defaul.
 ==Fisher Exact Test Usage==
@@ Line 17: / Line 17: @@
 </code>
-* Example: Edit a new file (FisherExactCSV.csh) using any editor and paste this inside (make sure the file has executable permisions). Some operating systems/platforms may require variants of this (C-shell) script.
+* Example: Edit a new file (FisherExactCSV.csh) using any editor and paste this inside (make sure the file has executable permissions). Some operating systems/platforms may require variants of this (C-shell) script.
 <code>#!/bin/csh</code>
 <code>date</code>
-<code>java -cp /cxfs/ccb/CCB_SW_Tools/others/Statistics/SOCR_Statistics/bin/SOCR_core.jar:/
+<code>java -cp /ifs/ccb/CCB_SW_Tools/others/Statistics/SOCR_Statistics/bin/SOCR_core.jar:/
-cxfs/ccb/CCB_SW_Tools/others/Statistics/SOCR_Statistics/bin/SOCR_plugin.jar edu.ucla.
+ifs/ccb/CCB_SW_Tools/others/Statistics/SOCR_Statistics/bin/SOCR_plugin.jar edu.ucla.stat.SOCR.analyses.command.FisherExactCSV /ifs/ccb/CCB_SW_Tools/others/Statistics/SOCR_Statistics/SOCR_CSV_test_Scripts_Data/f.txt -h 5</code>
 <code>date</code>
@@ Line 37: / Line 35: @@
 {| class="wikitable" style="text-align:center" border="1" cellpadding="2"
 |-
+! colspan=5 | f.txt
 |-
 | A

← Older revision		Revision as of 21:51, 6 March 2008
Line 93:		Line 93:
	</center>		</center>

−	{{translate\|pageName=http://wiki.stat.ucla.edu/socr/index.php?title=~~SOCR_EduMaterials_AnalysesCommandLineTwoIndependentFriedman~~}}	+	{{translate\|pageName=http://wiki.stat.ucla.edu/socr/index.php?title=SOCR_EduMaterials_AnalysesCommandLineFisherExact}}

@@ Line 5: / Line 5: @@
 ==General Usage==
-* Get the latest SOCR JAR files from the SOCR page (http://socr.ucla.edu/htmls/jars/).
+* Get the latest SOCR JAR files from the SOCR page (http://socr.umich.edu/html/jars/).
 * The command-line interface to SOCR Analyses generally uses '''EXAMPLE 1''' from the list of example data files for the corresponding analysis.
 * All Input files are ASCII (see examples within each of the specific analyses).
@@ Line 43: / Line 43: @@
 </center>
-{{translate|pageName=http://wiki.stat.ucla.edu/socr/index.php?title=SOCR_EduMaterials_AnalysesCommandLineFisherExact}}
+{{translate|pageName=http://wiki.socr.umich.edu/index.php?title=SOCR_EduMaterials_AnalysesCommandLineFisherExact}}

@@ Line 2: / Line 2: @@
 == Introduction ==
-In addition to the graphical user interfaces, via a web-browser, all [http://socr.ucla.edu/htmls/SOCR_Analyses.html SOCR Analyses] allow command-line shell execution on local systems.
+In addition to the graphical user interfaces, via a web-browser, all [http://socr.umich.edu/html/ana/ SOCR Analyses] allow command-line shell execution on local systems.
 ==General Usage==