Malverso Assessments & Reflections - Revision history

Malverso: added group page link

2015-12-18T20:46:45Z

added group page link

Malverso: did group eval

2015-12-18T20:45:49Z

did group eval

Malverso: added reflections

2015-12-17T06:33:47Z

added reflections

← Older revision		Revision as of 20:46, 18 December 2015
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		+	[[Heavy Metal HaterZ]]
	==Statement of Work==		==Statement of Work==
	* Link to my code on github: https://github.com/lmu-bioinformatics/xmlpipedb/blob/s-oneidensis/gmbuilder/src/edu/lmu/xmlpipedb/gmbuilder/databasetoolkit/profiles/ShewanellaOneidensisUniProtSpeciesProfile.java		* Link to my code on github: https://github.com/lmu-bioinformatics/xmlpipedb/blob/s-oneidensis/gmbuilder/src/edu/lmu/xmlpipedb/gmbuilder/databasetoolkit/profiles/ShewanellaOneidensisUniProtSpeciesProfile.java

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 #*This week I created a new species profile on xmlpipedb by creating a new class called ShewanellaOneidensisUniProtSpeciesProfile. In this new file, I used Dondi's guidlines to customize code for my specific species. To do this I had to first look up the taxon ID and the MOD link for a specific gene and adapted that line to be generic. Then I ran another Ant Build and gave the dist folder (which contained [[File:ShewanellaOneidensisGMBuilder_20151201_HMH.zip]]) to josh. Next I committed my code to github.
 #[[Malverso Week 15]]
-#*This week I used data from Emily and Ron to create a new expression dataset on genMAPP. Every single entry resulted in an error, which Josh and I located to be a missing underscore. I adapted code from Vibrio cholerae's species profile so that the program could handle underscore-less gene ID's. The first time I did this, I accidentally added underscores instead of taking them away, so I had to fix the error and then re-create the database. This database was successful, so I committed it to github. It can be downloaded [[Media:So-Std_HMH_20151214.zip | here]]. This week I also wrote slides for our [[Media:Biol Data Final Presentation.pdf | final presentation]] and wrote as well as reviewed parts of our final paper. <-- LINK
+#*This week I used data from Emily and Ron to create a new expression dataset on genMAPP. Every single entry resulted in an error, which Josh and I located to be a missing underscore. I adapted code from Vibrio cholerae's species profile so that the program could handle underscore-less gene ID's. The first time I did this, I accidentally added underscores instead of taking them away, so I had to fix the error and then re-create the database. This database was successful, so I committed it to github. It can be downloaded [[Media:So-Std_HMH_20151214.zip | here]]. This week I also wrote slides for our [[Media:Biol Data Final Presentation.pdf | final presentation]] and wrote portions of the paper. I wrote the section in the introduction that discussed the genome paper, and I wrote a significant amount of the results section (the schema, explaining the figures about ID counts, explaining the code changes). I also compiled the figures to correspond to these sections.
 ==Assessment of Project==
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 #Evaluate the Gene Database Project and Group Report in the following areas:
 #*Content: What is the quality of the work?
 #*Organization: Comment on the organization of the project and of your group's wiki pages.
 #*Completeness: Did your team achieve all of the project objectives? Why or why not?
 ==Reflection on the Process==

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 *What did you learn?
 *#With your head (biological or computer science principles)
 *#With your heart (personal qualities and teamwork qualities that make things work or not work)?
 *#With your hands (technical skills)?
 *What lesson will you take away from this project that you will still use a year from now?