User talk:Ckapla12

Some Quick Week 9 Feedback

Here is some interim feedback on your Week 9 assignment so you will be ready to move forward with Week 10.

• The Benjamini & Hochberg correction needs to be performed on the unadjusted p values, not the p values that were already Bonferroni-corrected. Essentially you did a correction on a correction and that's why your numbers for p values are so low.
• Your electronic notebook does a good job of providing a narrative of what you did an when. However, you should include the specific Excel equations that you used for each calculation. That way, somebody reading your notebook knows exactly what you did and can repeat your calculations based on the information you provided. You started off doing that, but then trailed off.
• Aside from noting the issue with the B-H p values, what conclusions can you draw from what we have done so far?

— Kdahlquist (talk) 10:41, 21 March 2024 (PDT)

Week 3 Feedback

• Thank you for submitting your shared SIR2 journal page on time!
• Be sure to invoke your template on each individual journal entry, even those that you are doing with a partner. Because the template did not get invoked, you were missing the category for "journal entry" at the bottom of the page.
• It looks like you have not used your template page in the way it was intended. Your template page is Template:Ckaplan. It is on this page that you should make your list of assignments, individual journal entries, and class journal entries that now appear at the bottom of your user page. Move this content to your Template:Ckaplan page instead. Then go back onto your user page and all of the individual journal entries that you have done so far and use the syntax {{Ckaplan}}. All of the stuff that you put on your Template:Ckaplan page will then appear whereever you invoked the code with the curley braces. That way, you only need to edit your template page and all the changes you make will automatically appear wherever you invoked your template.
• You have written something in the summary field for 37/44 edits (84%) which is a significant improvement. Keep up the good work and aim for >90%.
• You have all of the requested content on your page except for the following:
  • Note that the idea behind your gene summary on your own gene page was to summarize and paraphrase the content that you read about from the source databases. The idea was to synthesize that content into your own words.
  • Something odd happened when you translated your gene's DNA sequence using the ExPASy tool. Using the DNA sequence you provided, the correct amino acid sequence should have shown up in all red in the first frame. Did you paste extra sequences by mistake into the tool?
  • Your explanation of the similarities and differences between the databases could have been expanded.
• Wiki skills
  • Be sure to use bulleted and numbered lists to organize your content.
  • For example, you could have formatted your gene IDs as hyperlinks to each of the databases instead of providing a separate list of hyperlinks. Think about how you can use the wiki syntax to your advantage to format the page.
• Acknowledgments and References
  • Acknowledgments and References need to be two different sections, with two different headers, not combined together.
  • The Acknowledgments section is where you acknowledge the partners you worked with and the websites you used for style and syntax.
  • The Reference section should just have the list of references that were used to create the content for your page. This is like the references section of a paper where you need to list all of the citations you used in alphabetical order. You need to provide full APA-formatted citations. For a website, it is not just the website, but the authors, date, name of the site, URL, and date accessed.
• All Paul Ford means by "lexical analysis" is what he says, that a computer can only analyze instructions letter by letter. For example it would tell the difference between the word "fore" and "four" by examining the letter at the third position "r" vs. "u". When he uses the language "Business Operating Language United System (BOLUS)" he is actually making an inside joke. No such language exists; instead he is making fun of the COBOL "common business-oriented language" language which is really old (65 years!). He probably made the substitution so he could say that it was "terrible" without upsetting people, but still make his point.
• I'm also interested in knowing which of the databases you liked least.

— Kdahlquist (talk) 12:47, 13 February 2024 (PST)

Week 2 Feedback

• Thank you for submitting your work on time!
• During the period of review, you made 53 edits to the wiki and wrote something in the summary field 38% of the time. Remember, we are aiming for 100%.
• All of the requested tasks were completed appropriately, except for the following:
  • Electronic Lab Notebook
    • Your purpose is stated well.
    • For your methods, you need to explicitly state that you followed the directions in the handout, link to it, and include it in your references section.
    • You also need to provide more of a "blow by blow" explanation of what you did. For example, "I crossed parent 1 and parent 2 because of this reason, and I got these results (colors and proportions of offspring). I then looked at their protein structures and recorded the amino acid sequence. Then discuss your thought process of how you figured out what was different and what determined flower color. It would be helpful if you included some other screenshots to document your work, not just the purple one.
    • Be careful when talking about genotypes, phenotypes, genes, alleles, and traits (color). In some cases you are saying genes when you really mean alleles.
    • Your conclusion is stated well.
    • You have the Acknowledgments and References sections, but they need to be organized a little differently.
      • The Acknowledgements section needs to also record how you worked with your partner.
      • The academic honesty statement needs to also have your wiki signature.
    • The references section should only include citations to web pages, articles, books, software, etc. As noted above, you needed to cite the manual for this exercise. Please put the references for the class journal on this page, not the class journal page.
  • Wiki Skills
    • You have made your list of assignments, individual journal entries, and class journal entries on your User page. You need to move that code to your [[Template:Ckaplan]] page. You should also put [[Category:Journal Entry]] on that template page. Then you invoke your template on your user page and on your individual journal pages by using the code {{Ckaplan}}. When you do that, the stuff you put on the template page will appear where that code is. You will then invoke that same template on each of your subsequent weekly journal pages to fulfill the navigation links part of the assignment.
    • Note that if you want text to appear on different lines, you need to skip a link, i.e., have an empty line between them (or make a bulleted list). It is a little difficult to read some of your content because it got smushed together on the same line.
    • Use the wiki headers, bulleted, and numbered lists to your advantage to organize your page.
• To briefly answer your questions on the class journal, we can think of the chemical classifications of amino acid side chains to fall into four main groups: acidic (negatively charged), basic (positively charged), uncharged polar, and nonpolar. These different chemical properties have a huge influence on how proteins are folded and what types of chemical reactions they can do. If you want to talk more about this, let's talk in office hours.

— Kdahlquist (talk) 16:10, 6 February 2024 (PST)

Week 1 Feedback

• Thank you for submitting your assignment on time!
• All of the tasks from the assignment were complete, except for the following which were incomplete or could show some improvement. You will be able to earn back points that you lost by making these corrections by the deadline for the Week 3 assignment.
  • I recommend that you do not put your gmail address on your User page. This is a public facing website and you are inviting spam by posting it here.
  • I did not receive an email from you about any worries/concerns or if there was anything else you wanted me to know. Please send me an email about this, even if your answers are "no" to both questions.
  • You wrote something in the summary field 19/70 (27%) of the time during the period of review. You made quite a large number of edits, which shows me that you are working incrementally. However, please remember to write something in the summary field each time, aiming for >90% of the time.
  • You have created some extraneous wiki pages such as New wiki page, Journal Week 2, Journal, Week 2 assignment. Please pay careful attention to the names of the pages that you are asked to create, which will be in each week's assignment. Generally the individual journal pages you will create will be called "username Week 2", etc. Please go back and delete these extraneous pages, making sure that any relevant content (if any) is moved to the appropriate page first.
  • You used headings on your page, but they are nested down beyond the "====" level that was required by the assignment. Take a look at the organization of your page to see if headers could be used more effectively with just three levels.
  • Your bulleted list in the Personal Interests section similarly goes down very far in nested levels. This would look better as a simple list with one "*" each.
  • While the picture of your cat (cute!) is showing up properly on your page, the syntax for the picture of yourself at the top of the page is incorrect. Please fix it so that we can see that image properly.
  • For the file upload/link, please use a different file than an image. For example, a .pdf file of your resume or other document you would like to share.
  • While you created and invoked your template on your user page, the content of the template needs to be updated for it to be more useful for you in the future. Your list of assignment pages, individual journal entries, class journal entries, and "Journal Entry" category needs to be on your template page. Then when you invoke the template on your user page (and other journal entries), it will appear automatically on the page.
  • Please split up your References section into separate "Acknowledgements" and "References"sections, with the appropriate content in each.
• I'm glad the Janovy reading inspired you to consider yourself a biologist!

— Kdahlquist (talk) 13:13, 25 January 2024 (PST)