Unit tests for QuiXoT - Revision history

Mtrevisan: category unit tests

2018-02-19T14:02:05Z

category unit tests

Mtrevisan at 10:35, 4 May 2017

2017-05-04T10:35:20Z

Mtrevisan at 10:34, 4 May 2017

2017-05-04T10:34:14Z

Mtrevisan at 10:33, 4 May 2017

2017-05-04T10:33:05Z

Mtrevisan at 13:46, 26 April 2017

2017-04-26T13:46:33Z

Mtrevisan at 09:03, 26 April 2017

2017-04-26T09:03:48Z

Mtrevisan at 09:03, 26 April 2017

2017-04-26T09:03:36Z

Mtrevisan at 08:57, 26 April 2017

2017-04-26T08:57:33Z

Mtrevisan at 08:56, 26 April 2017

2017-04-26T08:56:56Z

Mtrevisan at 08:39, 26 April 2017

2017-04-26T08:39:30Z

← Older revision		Revision as of 14:02, 19 February 2018
Line 166:		Line 166:

	[[Category:QuiXoT]]		[[Category:QuiXoT]]
		+	[[Category:unit tests]]

@@ Line 70: / Line 70: @@
 In the following examples, we start with QuiXML/binStack files, so we can skip some of the initial steps.
-) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test2_18O.zip test1_full.zip]'''.
+) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test2_18O.zip test2_18O.zip]'''.
 ) Open ''QuiXoT.exe'', and drag and drop the ''O18_HR_bs.xml'' file on the program window to open it (keep in mind that, if you move this file, you have to move also the binStack folder, in case you want to see or use the spectra). Choose the strategy (for this example, ''18O, HR, SEQUEST'').
@@ Line 101: / Line 101: @@
 As this test is very similar to Test 2, the parts that are different are highlighted in <font color=green>green colour</font> for comparison.
-) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test3_iTRAQ.zip test1_full.zip]'''.
+) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test3_iTRAQ.zip test3_iTRAQ.zip]'''.
 ) Open ''QuiXoT.exe'', and drag and drop the <font color=green>''iTRAQ_4plex_Mascot_114vs116_bs.xml''</font> file on the program window to open it (keep in mind that, if you move this file, you have to move also the binStack folder, in case you want to see or use the spectra). Choose the strategy (for this example, <font color=green>''iTRAQ, 4plex, Mascot''</font>).
@@ Line 130: / Line 130: @@
 As this test is very similar to Test 2, the parts that are different are highlighted in <font color=royalblue>blue colour</font> for comparison.
-) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test4_SILAC.zip test1_full.zip]'''.
+) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test4_SILAC.zip test4_SILAC.zip]'''.
 ) Open ''QuiXoT.exe'', and drag and drop the <font color=royalblue>''SILAC_HR_bs.xml''</font> file on the program window to open it (keep in mind that, if you move this file, you have to move also the binStack folder, in case you want to see or use the spectra). Choose the strategy (for this example, <font color=royalblue>''SILAC, HR, SEQUEST''</font>).

@@ Line 5: / Line 5: @@
 This first test uses several programs of the '''[[QuiXoT software package]]''', such as '''[[pRatio]]''' or '''[[RAWToBinStack]]'''. In case you cannot use some of them (for example because you do not have Xcalibur installed), but you want to test ''only'' QuiXoT, you can skip this test and check tests 2, 3, and 4, which do not require satellite programs.
-) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test1_full.zip]'''.
+) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test1_full.zip test1_full.zip]'''.
 ) After unzipping the files, you should have three folders: ''dir'', ''inv'', and ''raw''.
@@ Line 70: / Line 70: @@
 In the following examples, we start with QuiXML/binStack files, so we can skip some of the initial steps.
-) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test2_18O.zip]'''.
+) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test2_18O.zip test1_full.zip]'''.
 ) Open ''QuiXoT.exe'', and drag and drop the ''O18_HR_bs.xml'' file on the program window to open it (keep in mind that, if you move this file, you have to move also the binStack folder, in case you want to see or use the spectra). Choose the strategy (for this example, ''18O, HR, SEQUEST'').
@@ Line 101: / Line 101: @@
 As this test is very similar to Test 2, the parts that are different are highlighted in <font color=green>green colour</font> for comparison.
-) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test3_iTRAQ.zip]'''.
+) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test3_iTRAQ.zip test1_full.zip]'''.
 ) Open ''QuiXoT.exe'', and drag and drop the <font color=green>''iTRAQ_4plex_Mascot_114vs116_bs.xml''</font> file on the program window to open it (keep in mind that, if you move this file, you have to move also the binStack folder, in case you want to see or use the spectra). Choose the strategy (for this example, <font color=green>''iTRAQ, 4plex, Mascot''</font>).
@@ Line 130: / Line 130: @@
 As this test is very similar to Test 2, the parts that are different are highlighted in <font color=royalblue>blue colour</font> for comparison.
-) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test4_SILAC.zip]'''.
+) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test4_SILAC.zip test1_full.zip]'''.
 ) Open ''QuiXoT.exe'', and drag and drop the <font color=royalblue>''SILAC_HR_bs.xml''</font> file on the program window to open it (keep in mind that, if you move this file, you have to move also the binStack folder, in case you want to see or use the spectra). Choose the strategy (for this example, <font color=royalblue>''SILAC, HR, SEQUEST''</font>).

@@ Line 5: / Line 5: @@
 This first test uses several programs of the '''[[QuiXoT software package]]''', such as '''[[pRatio]]''' or '''[[RAWToBinStack]]'''. In case you cannot use some of them (for example because you do not have Xcalibur installed), but you want to test ''only'' QuiXoT, you can skip this test and check tests 2, 3, and 4, which do not require satellite programs.
-) Download the zip with the files from '''[[coming soon|here]]'''.
+) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test1_full.zip]'''.
 ) After unzipping the files, you should have three folders: ''dir'', ''inv'', and ''raw''.
@@ Line 70: / Line 70: @@
 In the following examples, we start with QuiXML/binStack files, so we can skip some of the initial steps.
-) Download the zip with the files from '''[[coming soon|here]]'''.
+) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test2_18O.zip]'''.
 ) Open ''QuiXoT.exe'', and drag and drop the ''O18_HR_bs.xml'' file on the program window to open it (keep in mind that, if you move this file, you have to move also the binStack folder, in case you want to see or use the spectra). Choose the strategy (for this example, ''18O, HR, SEQUEST'').
@@ Line 101: / Line 101: @@
 As this test is very similar to Test 2, the parts that are different are highlighted in <font color=green>green colour</font> for comparison.
-) Download the zip with the files from '''[[coming soon|here]]'''.
+) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test3_iTRAQ.zip]'''.
 ) Open ''QuiXoT.exe'', and drag and drop the <font color=green>''iTRAQ_4plex_Mascot_114vs116_bs.xml''</font> file on the program window to open it (keep in mind that, if you move this file, you have to move also the binStack folder, in case you want to see or use the spectra). Choose the strategy (for this example, <font color=green>''iTRAQ, 4plex, Mascot''</font>).
@@ Line 130: / Line 130: @@
 As this test is very similar to Test 2, the parts that are different are highlighted in <font color=royalblue>blue colour</font> for comparison.
-) Download the zip with the files from '''[[coming soon|here]]'''.
+) Download the zip with the files from '''[ftp://ftp.cnic.es/ftpsvc/pub/test4_SILAC.zip]'''.
 ) Open ''QuiXoT.exe'', and drag and drop the <font color=royalblue>''SILAC_HR_bs.xml''</font> file on the program window to open it (keep in mind that, if you move this file, you have to move also the binStack folder, in case you want to see or use the spectra). Choose the strategy (for this example, <font color=royalblue>''SILAC, HR, SEQUEST''</font>).

← Older revision		Revision as of 13:46, 26 April 2017
Line 164:		Line 164:
	=== References ===		=== References ===
	<references/>		<references/>
		+
		+	[[Category:QuiXoT]]

← Older revision		Revision as of 09:03, 26 April 2017
Line 1:		Line 1:
−	We present here four experiments you may use to check '''[[QuiXoT]]'''. Here they are mainly presented to test whether the software is working as expected in your machine, but you can use them also as a practical introduction. Once you completed this step, you can '''[[Exploring QuiXoT features\|explore other QuiXoT features]]'''`, analyse your experiments on your own, or even modify the programs to adapt them to your needs (within the '''[[PROTEOMICA:Copyrights\|terms]]''').	+	We present here four experiments you may use to check '''[[QuiXoT]]'''. Here they are mainly presented to test whether the software is working as expected in your machine, but you can use them also as a practical introduction. Once you completed this step, you can '''[[Exploring QuiXoT features\|explore other QuiXoT features]]''', analyse your experiments on your own, or even modify the programs to adapt them to your needs (within the '''[[PROTEOMICA:Copyrights\|terms]]''').

	=== Test 1: 18O quantification and statistical analysis from Proteome Discoverer results ===		=== Test 1: 18O quantification and statistical analysis from Proteome Discoverer results ===

← Older revision		Revision as of 08:57, 26 April 2017
Line 1:		Line 1:
−	We present here four experiments you may use to check '''[[QuiXoT]]'''. Here they are mainly presented to test ~~if it~~ is working as expected in your machine. Once you confirm this, you can also '''[[Exploring QuiXoT features\|explore other QuiXoT features]]'''.	+	We present here four experiments you may use to check '''[[QuiXoT]]'''. Here they are mainly presented to test whether the software is working as expected in your machine, but you can use them also as a practical introduction. Once you confirm this, you can also '''[[Exploring QuiXoT features\|explore other QuiXoT features]]'''.

	=== Test 1: 18O quantification and statistical analysis from Proteome Discoverer results ===		=== Test 1: 18O quantification and statistical analysis from Proteome Discoverer results ===

← Older revision		Revision as of 08:56, 26 April 2017
Line 1:		Line 1:
−	We present here four experiments you may use to check '''[[QuiXoT]]'''. Here they are mainly presented to to test if it is working as expected in your machine. Once you confirm this, you can also '''[[Exploring QuiXoT features\|explore other QuiXoT features]]'''.	+	We present here four experiments you may use to check '''[[QuiXoT]]'''. Here they are mainly presented to test if it is working as expected in your machine. Once you confirm this, you can also '''[[Exploring QuiXoT features\|explore other QuiXoT features]]'''.

	=== Test 1: 18O quantification and statistical analysis from Proteome Discoverer results ===		=== Test 1: 18O quantification and statistical analysis from Proteome Discoverer results ===

@@ Line 3: / Line 3: @@
 === Test 1: 18O quantification and statistical analysis from Proteome Discoverer results ===
-This first test uses several programs of the '''[[QuiXoT software package]]''', such as '''[[pRatio]]''' or '''[[RAWToBinStack]]'''. In case you cannot use some of them (for example because you do not have Xcalibur installed), but you want to test ''only'' QuiXoT, you can skip this test and check tests 1, 2 and 3, which do not require satellite programs.
+This first test uses several programs of the '''[[QuiXoT software package]]''', such as '''[[pRatio]]''' or '''[[RAWToBinStack]]'''. In case you cannot use some of them (for example because you do not have Xcalibur installed), but you want to test ''only'' QuiXoT, you can skip this test and check tests 2, 3, and 4, which do not require satellite programs.
 ) Download the zip with the files from '''[[coming soon|here]]'''.