CURE Report Part 2 Worksheet Week 8 S24

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University of Louisville *

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Apr 3, 2024

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s R " h 3 ot . L B \ o “ Ll SRS S S CURE Report Part I1 j—» s Week 2, BIOL 213 T . g e T - ,""’*‘ RS Today, you will complete this worksheet as you Team members present: analyze the data you gathered last week for the CURE : , ) ) 1.(lead author) Tori Neudecker report. We'll be using the .csv file you created last 5 Freddi week and the statistics website you used in Week 4 to: |~ reddie _ . : 3.Soado (1) calculate descriptive statistics for all your variables, 4. Quenti (2) create histograms and plots to determine if your L= uentin variables are normally distributed, (3) select an appropriate statistic test for each of your hypotheses, and (4) report those results. You’ll also produce graphs and captions of those results today, so that your GTA can provide feedback to you before you place these elements in your CURE report. Finally, you will draft a methods and results section of your CURE report for your GTA to provide feedback on this week. Unlike the introduction section in last week’s lab, providing a draft of both your methods and results section this week in lab is required rather than optional. _ WEEK 8 LEARNING OUTCOMES INTRODUCTION By the end of this lab, you will: Last week in lab, you formed two hypotheses o Identify explanatory (independent) and using the CURE data we’ve collected so far in response (dependent) variables BIOL 241 and 243. Today, let’s review those o Identify continuous and categorical hypotheses, and use what we’ve learned in variables previous labs and prelabs in BIOL 243 to ¢ Contrast descriptive statistics and classify our variables as (1) explanatory or inferential statistics response variables, (2) continuous or e Choose which statistical test is most categorical, and (3) normally distributed or appropriate given the type of data to be not normally distributed. To do this, we’ll analyzed need to refer back to the Shiny app statistics website you used in Week 4 of this lab to analyze an example dataset collected by one of the professors of the introductory course sequence, Dr. Abolins-Abols. A QUICK NOTE: Before you begin this lab, here’s quick note for those of you that extracted data from QGIS from either the imperviousness or canopy cover raster. If you did, take a look at your .csv of extracted data before lab. “No data” (or cells with missing values) in these 2 raster layers will have values larger than 100 in the .csv. Delete any values in that column that are larger than Photo by Bruno Pereira on Unsplash

100 before you perform your statistical analyses. The Shiny app statistics website will ignore cells that are empty. Before we return to this website and perform our statistical analyses this week, be sure to also look over the feedback you received from your GTA on your hypotheses. MATERIALS e Acomputer e Soil Collection data .csv file (that contains your extracted raster data from last week!) PART 1: RESPOND TO REVIEWER COMMENTS ON YOUR WORK FROM PART 1 Using your GTA’s feedback on last week’s worksheet and Introduction draft (on OneDrive), rewrite your hypotheses below, if edits were suggested. If no edits were suggested, simply copy-paste your work from last week here. Hypothesis 1 (0.5 pt): We hypothesize microbial abundance will be lower in cooler temperatures as some microbes and bacteria may not be capable of surviving in cold temperatures. Hypothesis 2 (0.5 pt): We hypothesize different landcover types will have different microbial abundances due to varying plant diversity and unique microbial species. Read through the feedback your GTA provided on your OneDrive Introduction draft. Today, edit this draft directly, being sure to include (1) any edits you proposed to your hypotheses above in your revised Introduction, too, and (2) responding to any other suggestions from your GTA. (1 pt) Now, below your Introduction, add a new section to your OneDrive document called “Methods.” Do you need to make any changes to your QGIS map, based on feedback from your GTA? If so, updated and upload your new QGIS map to your OneDrive document’s Methods section (1 pt). If you don’t need to make any changes, just upload your map from last week’s worksheet. Also in your OneDrive document, include an updated version of your QGIS map caption from last week. If you need to make any changes based on GTA feedback, do so. If not, copy-paste your work from the last worksheet into your OneDrive file. (1 pt)

PART 2: CALCULATE DESCRIPTIVE STATISTICS Click on this link to go to our Shiny app statistics website: https://abolins.shinvapps.io/biostats2/ e R Browse... No file selected We first need to upload your dataset. ~_ 1. Be sure you know where you saved the .csv click here to upload your data file that you created at the end of lab last , Head week. We need it, rather than the .csv file on sacer Bb, because the .csv file on Bb doesn’t contain ~ Separater O Comma any of the QGIS data. Semicoion 2. On the statistics website, click on “Choose - do not change CSV File” button and navigate to the location these Quote where you downloaded your dataset. None 3. Your full dataset should now be uploaded to T e the webpage. You can toggle between seeing Single Quote the beginning of the dataset and the full dataset by changing between “Head” and “upr . ey ” Display ou can change All” options under “Display”. O Head :/hese t0 see a?l o 4. You should keep the other dataset options at All _ some of the dataset their default values (Header should be selected; Separator should be “Comma”; Quote should be “Double Quote”). Note that before you have uploaded the dataset and before variables are selected, the page may display the following error message: Error: An error has occurred. Check your logs or contact the app author for clarification. Ilgnore this error, it is displayed because the website cannot calculate anything because you haven’t chosen the data you want to plot/analyze. Recall that, once your dataset has been uploaded, it’s time to explore your data to determine what kind of statistical test you need to run for each hypothesis. Below the dataset you just imported into our Shiny app, you will see five tabs. To the left of each tab, you will see additional information about what you can do in each tab. Data summary Plots Correlation tests Group tests Advanced group tests Let’s use the Data summary tab first. Here, you will be able to do the following things: e Get summary statistics for each continuous variable (average, sample size, minimum and maximum values, as well as its variance (a statistical metric of how variable the data is). e Below the summary statistics, you will be able to inspect the histograms of each continuous variable. Remember from your pre-laboratory assignment that we use

histograms to see if both the response and explanatory continuous variables are normally distributed, to determine whether we should use Pearson or Spearman Rank correlation coefficients to analyze the relationship between two continuous variables. At the bottom of the Data Summary tab ,you will be able to inspect the distribution of a continuous variable across two different groups from an explanatory categorical variable that only has two groups. Remember from your pre-laboratory assignment that we need to know if a continuous variable is normally distributed in both groups of a categorical variable to determine if we can use a T-test or a Mann-Whitney U test to analyze differences between two groups. If you have more than two groups in your categorical variable, than you can’t use this tab of our Shiny app — and cannot do much in this section (Part 2) of the worksheet either. When prompted below, report that your variable has more than two categories, and move on to Part 3. Below, select the appropriate tables to report data on each of your hypotheses. Note that, since you only have two hypotheses, only two (at most) of the provided tables should contain information. We’ve provided enough tables for you to use regardless of your chosen hypothesis. If you need help understanding which table to complete — and which tab to use on our Shiny app on our website — raise your hand and ask for questions from your GTA. HYPOTHESIS 1 (2 pts): Do you have two continuous variables for hypothesis 1? If so, fill out this table. If not, skip it. Continuous variable 1 Continuous variable 2 Average 70.780222 n/a Sample size 91 91 Minimum value 49 high Maximum value 85 low Variance 81.57338 n/a Is it normally distributed based on its histogram? yes Yes Do you have one continuous variable and one categorical variable with 2 categories, only, for hypothesis 1? If so, fill out this table. If not, skip it. Name of continuous variable Name of categorical variable

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