Simonwro120 Week 9 - Revision history

Simonwro120: syntax fix

2017-10-31T02:00:05Z

syntax fix

Simonwro120: forgot sig and temp

2017-10-31T01:58:40Z

forgot sig and temp

Simonwro120: syntax fix

2017-10-31T01:55:12Z

syntax fix

Simonwro120: added a few more notes/finished

2017-10-31T01:48:10Z

added a few more notes/finished

Simonwro120: syntax fix

2017-10-31T01:22:10Z

syntax fix

Simonwro120: added file names

2017-10-31T01:14:09Z

added file names

Simonwro120: Added Acknowledgement/observations

2017-10-31T01:09:28Z

Added Acknowledgement/observations

Simonwro120: fixed notebook and finished tests

2017-10-31T01:03:28Z

fixed notebook and finished tests

Simonwro120: syntax

2017-10-30T22:27:50Z

syntax

Simonwro120: syntax/tests up to 9

2017-10-30T22:22:21Z

syntax/tests up to 9

@@ Line 87: / Line 87: @@
 *Special thanks to Dondi for his helpful hints and generous responses to our lifeline.
 *While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source.
-*<b>Signature:</b>[[User:Simonwro120|Simonwro120]] ([[User talk:Simonwro120|talk]]) 18:58, 30 October 2017 (PDT)
+*<b>Signature:</b> [[User:Simonwro120|Simonwro120]] ([[User talk:Simonwro120|talk]]) 18:58, 30 October 2017 (PDT)
 {{simonwro120}}

@@ Line 87: / Line 87: @@
 *Special thanks to Dondi for his helpful hints and generous responses to our lifeline.
 *While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source.
 ==References==

@@ Line 67: / Line 67: @@
 ==Web Service API Exploration Notes==
-*The URL my group use in order to retrieve the desired data was <code>https://yeastmine.yeastgenome.org/yeastmine/service/data/Gene?symbol=BRO1</code>
+*The URL my group use in order to retrieve the desired data was:<br>
 **The last part of this URL <code>?symbol=BRO1</code> is what specificies what we are looking for: 1: a symbol, and 2: a symbol with the characters "BRO1"
 *What happens if you enter this query request in your address bar?
 **Depending on the Gene Symbol you typed in, after sending the request, your computer will automatically download a .json file with all the information specific to that gene
-**For example, If I entered <code>https://yeastmine.yeastgenome.org/yeastmine/service/data/Gene?symbol=BRO1</code>, I'd get all the info about the yeast gene BRO1. However, if I typed <code>https://yeastmine.yeastgenome.org/yeastmine/service/data/Gene?symbol=SPT</code> I would get the same thing, except all the data would be relevant to the yeast gene SPT15 instead.
+**For example, If I entered <code>https://yeastmine.yeastgenome.org/yeastmine/service/data/Gene?symbol=BRO1</code>, I'd get all the info about the yeast gene BRO1.<br> However, if I typed <code>https://yeastmine.yeastgenome.org/yeastmine/service/data/Gene?symbol=SPT</code> I would get the same thing, except all the data would be relevant to the yeast gene SPT15 instead.
 ==Notebook Step-by-Step==

@@ Line 37: / Line 37: @@
 ==GRNsight Lab Notebook==
 ===Beta Testing GRNsight===
 #To begin, I downloaded three different files from the GRNsight repository. One in <code>.sif</code> format, <code>.xlsx</code> format, and <code>.graphml</code> format.
@@ Line 42: / Line 43: @@
 -genes_31-edges_Schade-data_estimation_output.sif
 -genes_31-edges_Schade-data_estimation_output.graphml
 #Next, I performed each test on the <code>.xlsx</code> file, <code>.sif</code> file, and <code>.graphml</code> file in GRNsight.
 #*<b>Test 1: Passed</b>
@@ Line 62: / Line 62: @@
 #*<b>Test 17: Passed</b>
 #*<b>Test 18: Passed</b>
 ===Observations===
 *All tests passed which is excellent!
@@ Line 68: / Line 67: @@
 ==Web Service API Exploration Notes==
+*The URL my group use in order to retrieve the desired data was <code>https://yeastmine.yeastgenome.org/yeastmine/service/data/Gene?symbol=BRO1</code>
 == Acknowledgements ==

@@ Line 39: / Line 39: @@
 ===Beta Testing GRNsight===
 #To begin, I downloaded three different files from the GRNsight repository. One in <code>.sif</code> format, <code>.xlsx</code> format, and <code>.graphml</code> format.
 -genes_31-edges_Schade-data_estimation_output.xlsx
 -genes_31-edges_Schade-data_estimation_output.sif
@@ Line 78: / Line 77: @@
 ==References==
-LMU BioDB 2017. (2017). Week 9. Retrieved October 26, 2017, from [https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_9 https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_9]
+*LMU BioDB 2017. (2017). Week 9. Retrieved October 26, 2017, from [https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_9 https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_9]

@@ Line 1: / Line 1: @@
-=GRNsight Lab Notebook=
+=Homework Instructions=
 ==Beta Testing GRNsight==
 #To begin, I downloaded three different files from the GRNsight repository. One in <code>.sif</code> format, <code>.xlsx</code> format, and <code>.graphml</code> format.
-#Next, I performaed test one and opened the <code>.xlsx</code> file in GRNsight and verified that both the file worked and the ''Show With Mouse Over'' button worked with the ''Hide/Show Edge Weights'' feature.
+#Next, I performed each test on the <code>.xlsx</code> file, <code>.sif</code> file, and <code>.graphml</code> file in GRNsight.
 #*<b>Test 1: Passed</b>
 #*<b>Test 2: Passed</b>
 #*<b>Test 3: Passed</b>
-#Next, I performaed test four and opened the <code>.xlsx</code> file in GRNsight and verified that both the file worked and the ''Show With Mouse Over'' button worked with the ''Always Show Edge Weights'' feature.
+#*<b>Test 4: Passed</b>.
 #*<b>Test 5: Passed</b>
 #*<b>Test 6: Passed</b>
 #*<b>Test 7: Passed</b>
 #*<b>Test 8: Passed</b>
 #*<b>Test 9: Passed</b>
 ==Web Service API Exploration Notes==
 ==References==
 LMU BioDB 2017. (2017). Week 9. Retrieved October 26, 2017, from [https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_9 https://xmlpipedb.cs.lmu.edu/biodb/fall2017/index.php/Week_9]

@@ Line 12: / Line 12: @@
 #Next, I performed test five and imported the <code>.sif</code> file in GRNsight and verified that both the file worked and the ''Show With Mouse Over'' button worked with the ''Always Show Edge Weights'' feature.
 #*<b>Test 5: Passed</b>
-#Next, I performed test six and imported the <code>.graphml</code> file in GRNsight and verified that both the file worked and the ''Show With Mouse Over'' button worked with the ''Always Show Edge Weights'' feature.
+#Next, I performed test six and imported the <code>.graphml</code> file in GRNsight and verified that the file worked with the ''Always Show Edge Weights'' feature.
 #*<b>Test 6: Passed</b>
-#Next, I performaed test seven and opened the <code>.xlsx</code> file in GRNsight and verified that both the file worked and the ''Show With Mouse Over'' button worked with the ''Never Show Edge Weights'' feature.
+#Next, I performaed test seven and opened the <code>.xlsx</code> file in GRNsight and verified that the file worked  with the ''Never Show Edge Weights'' feature.
 #*<b>Test 7: Passed</b>
-#Next, I performed test eight and imported the <code>.sif</code> file in GRNsight and verified that both the file worked and the ''Show With Mouse Over'' button worked with the ''Never Show Edge Weights'' feature.
+#Next, I performed test eight and imported the <code>.sif</code> file in GRNsight and verified that the file worked with the ''Never Show Edge Weights'' feature.
 #*<b>Test 8: Passed</b>
-#Next, I performed test nine and imported the <code>.graphml</code> file in GRNsight and verified that both the file worked and the ''Show With Mouse Over'' button worked with the ''Never Show Edge Weights'' feature.
+#Next, I performed test nine and imported the <code>.graphml</code> file in GRNsight and verified that the file worked with the ''Never Show Edge Weights'' feature.
 #*<b>Test 9: Passed</b>