Biol20N02 2017 - Revision history

imported>Weigang: /* May 18. Regression */

2017-05-18T15:59:09Z

May 18. Regression

← Older revision		Revision as of 15:59, 18 May 2017
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	* Calculate confidence interval of the population slope		* Calculate confidence interval of the population slope
	* Obtain R-squared value and explain its meaning and significance		* Obtain R-squared value and explain its meaning and significance
	* Add confidence band		* Add confidence band line
	* Add confidence line		* Add confidence interval line

	\|}		\|}

imported>Weigang: /* May 18. Regression */

2017-05-18T15:57:47Z

May 18. Regression

← Older revision		Revision as of 15:57, 18 May 2017
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	* Chapter 16. [http://whitlockschluter.zoology.ubc.ca/r-code/rcode17 R Data & Code on Publisher's Website]		* Chapter 16. [http://whitlockschluter.zoology.ubc.ca/r-code/rcode17 R Data & Code on Publisher's Website]
	* In-class Exercise 1. Lion noses. Linear regression with regression line & confidence intervals		* In-class Exercise 1. Lion noses. Linear regression with regression line & confidence intervals
	* In-class Exercise 2. Prairie Home ~~Campion~~. Linear regression with test of non-zero slope		* In-class Exercise 2. Prairie Home Companion. Linear regression with test of non-zero slope
	* In-class Exercise 3. Iris pollination. Square-root transformation		* In-class Exercise 3. Iris pollination. Square-root transformation
	* In-class Exercise 4. Iron and phytoplankton growth. Non-linear regression		* In-class Exercise 4. Iron and phytoplankton growth. Non-linear regression
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	{\| class="wikitable sortable mw-collapsible"		{\| class="wikitable sortable mw-collapsible"
	\|- style="background-color:lightsteelblue;"		\|- style="background-color:lightsteelblue;"
	! Assignment #10. Due In Class ~~(To be posted)~~		! Assignment #10. Due In-Class or 5/25
	\|- style="background-color:powderblue;"		\|- style="background-color:powderblue;"
	\|		\| (10 pts) Using the "Prairie Home Companion" data set to answer the following questions
			* Test the normality of response variable using <code>qqnorm</code> and <code>qqline</code>
			* Make scatter plot with axes labels
			* Log-transform the response variable and make a new scatter plot
			* Perform regression analysis using <code>lm</code>
			* What is the regression formula (intercept and slope? significance of each?)
			* Calculate confidence interval of the population slope
			* Obtain R-squared value and explain its meaning and significance
			* Add confidence band
			* Add confidence line

	\|}		\|}

imported>Weigang: /* May 11. Correlation */

2017-05-13T20:52:06Z

May 11. Correlation

← Older revision		Revision as of 20:52, 13 May 2017
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	{\| class="wikitable sortable mw-collapsible"		{\| class="wikitable sortable mw-collapsible"
	\|- style="background-color:lightsteelblue;"		\|- style="background-color:lightsteelblue;"
	! Assignment #9. Due 5/18 (~~To be posted~~)		! Assignment #9. Due 5/18 (Finalized)
	\|- style="background-color:powderblue;"		\|- style="background-color:powderblue;"
	\|		\|

imported>Weigang: /* May 11. Correlation */

2017-05-13T15:02:00Z

May 11. Correlation

← Older revision		Revision as of 15:02, 13 May 2017
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	\|- style="background-color:powderblue;"		\|- style="background-color:powderblue;"
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	(Lecture slides has been posted.)		(Note: Lecture slides has been posted. For help, refer to the slides and [http://whitlockschluter.zoology.ubc.ca/r-code/rcode16 R Data & Code on Publisher's Website])

	Question 1 (6 pts). In their study of hyena laughter (or "giggle"), Mathevon et al (2010) asked whether sound spectral properties of the giggles are associated with age. Perform correlation analysis using data in the following table:		Question 1 (6 pts). In their study of hyena laughter (or "giggle"), Mathevon et al (2010) asked whether sound spectral properties of the giggles are associated with age. Perform correlation analysis using data in the following table:

imported>Weigang: /* May 11. Correlation */

2017-05-13T14:59:32Z

May 11. Correlation

← Older revision		Revision as of 14:59, 13 May 2017
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	\|- style="background-color:powderblue;"		\|- style="background-color:powderblue;"
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			(Lecture slides has been posted.)

	Question 1 (6 pts). In their study of hyena laughter (or "giggle"), Mathevon et al (2010) asked whether sound spectral properties of the giggles are associated with age. Perform correlation analysis using data in the following table:		Question 1 (6 pts). In their study of hyena laughter (or "giggle"), Mathevon et al (2010) asked whether sound spectral properties of the giggles are associated with age. Perform correlation analysis using data in the following table:
	{\| class="wikitable"		{\| class="wikitable"

imported>Weigang: /* May 11. Correlation */

2017-05-13T14:57:02Z

May 11. Correlation

← Older revision		Revision as of 14:57, 13 May 2017
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	===May 11. Correlation===		===May 11. Correlation===
	* Chapter 16. [http://whitlockschluter.zoology.ubc.ca/r-code/rcode16 R Data & Code on Publisher's Website]		* Chapter 16. [http://whitlockschluter.zoology.ubc.ca/r-code/rcode16 R Data & Code on Publisher's Website]
			* Lecture slides: [[File:Part-4-correlation-spring-2017.pdf\|thumbnail]]
	* In-class Exercise 1. Aggression behavior in birds. (1) Make a data frame with two columns; (2) Make a scatter plot with title and axes labels		* In-class Exercise 1. Aggression behavior in birds. (1) Make a data frame with two columns; (2) Make a scatter plot with title and axes labels
	{\| class="wikitable"		{\| class="wikitable"

imported>Weigang: /* May 11. Correlation */

2017-05-13T14:15:52Z

May 11. Correlation

← Older revision		Revision as of 14:15, 13 May 2017
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	# (6 pts) In their study of hyena laughter (or "giggle"), Mathevon et al (2010) asked whether sound spectral properties of the giggles are associated with age. Perform correlation analysis using data in the following table:		Question 1 (6 pts). In their study of hyena laughter (or "giggle"), Mathevon et al (2010) asked whether sound spectral properties of the giggles are associated with age. Perform correlation analysis using data in the following table:
	{\| class="wikitable"		{\| class="wikitable"
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	* Conclude if there is a correlation between the age and "giggle", if it is statistically significant, and whether positive or negative if the relationship is significant.		* Conclude if there is a correlation between the age and "giggle", if it is statistically significant, and whether positive or negative if the relationship is significant.

	# (4 pts) A mutation in the <i>SLC11A1</i> gene in humans causes resistance to tuberculosis. Barnes et al (2011) examined the frequency of the resistant allele in different towns in Europe and Asia and compared it to how long humans had been settled in the site ("duration of settlement"):		Question 2(4 pts). A mutation in the <i>SLC11A1</i> gene in humans causes resistance to tuberculosis. Barnes et al (2011) examined the frequency of the resistant allele in different towns in Europe and Asia and compared it to how long humans had been settled in the site ("duration of settlement"):
	{\| class="wikitable"		{\| class="wikitable"
	\|-		\|-

imported>Weigang: /* May 11. Correlation */

2017-05-13T14:14:41Z

May 11. Correlation

← Older revision		Revision as of 14:14, 13 May 2017
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	\| Frequency (Hz) \|\| 840,670,580,470,540,660,510,520,500,480,400,650,460,500,580,500		\| Frequency (Hz) \|\| 840,670,580,470,540,660,510,520,500,480,400,650,460,500,580,500
	\|}		\|}
	## Identify explanatory and response variables and their data types.		* Identify explanatory and response variables and their data types.
	## Make a data frame and test normality of both variables		* Make a data frame and test normality of both variables
	## Make a scatterplot including axes labels and a main title		* Make a scatterplot including axes labels and a main title
	## Calculate correlation coefficient between the two variables and show test results		* Calculate correlation coefficient between the two variables and show test results
	## State null and alternative hypotheses of the correlation test		* State null and alternative hypotheses of the correlation test
	## Conclude if there is a correlation between the age and "giggle", if it is statistically significant, and whether positive or negative if the relationship is significant.		* Conclude if there is a correlation between the age and "giggle", if it is statistically significant, and whether positive or negative if the relationship is significant.

	# A mutation in the <i>SLC11A1</i> gene in humans causes resistance to tuberculosis. Barnes et al (2011) examined the frequency of the resistant allele in different towns in Europe and Asia and compared it to how long humans had been settled in the site ("duration of settlement"):		# (4 pts) A mutation in the <i>SLC11A1</i> gene in humans causes resistance to tuberculosis. Barnes et al (2011) examined the frequency of the resistant allele in different towns in Europe and Asia and compared it to how long humans had been settled in the site ("duration of settlement"):
	{\| class="wikitable"		{\| class="wikitable"
	\|-		\|-
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	\| Allele frequency \|\| 0.99,1.0,0.948,0.885,0.947,0.854,1.0,0.769,0.9956,0.979,0.865,0.922,0.821,0.842,0.734,0.766,0.772		\| Allele frequency \|\| 0.99,1.0,0.948,0.885,0.947,0.854,1.0,0.769,0.9956,0.979,0.865,0.922,0.821,0.842,0.734,0.766,0.772
	\|}		\|}
			* Make a data frame and test variable normality.
			* Examine data with a scatterplot (with axes labels).
			* Since the relationship appears curvilinear, use Spearman's rank correlation to test the association
			* Show test results and state your conclusions (if there is a correlation, if it is significant, and whether the relation is positive or negative if significant).
	\|}		\|}

imported>Weigang: /* May 11. Correlation */

2017-05-13T14:07:57Z

May 11. Correlation

← Older revision		Revision as of 14:07, 13 May 2017
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	! Assignment #9. Due 5/18 (To be posted)		! Assignment #9. Due 5/18 (To be posted)
	\|- style="background-color:powderblue;"		\|- style="background-color:powderblue;"
	\| # In their study of hyena laughter (or "giggle"), Mathevon et al (2010) asked whether sound spectral properties of the giggles are associated with age. Perform correlation analysis using data in the following table.		\|
			# (6 pts) In their study of hyena laughter (or "giggle"), Mathevon et al (2010) asked whether sound spectral properties of the giggles are associated with age. Perform correlation analysis using data in the following table:
	{\| class="wikitable"		{\| class="wikitable"
	\|-		\|-
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	\|-		\|-
	\| Frequency (Hz) \|\| 840,670,580,470,540,660,510,520,500,480,400,650,460,500,580,500		\| Frequency (Hz) \|\| 840,670,580,470,540,660,510,520,500,480,400,650,460,500,580,500
			\|}
			## Identify explanatory and response variables and their data types.
			## Make a data frame and test normality of both variables
			## Make a scatterplot including axes labels and a main title
			## Calculate correlation coefficient between the two variables and show test results
			## State null and alternative hypotheses of the correlation test
			## Conclude if there is a correlation between the age and "giggle", if it is statistically significant, and whether positive or negative if the relationship is significant.

			# A mutation in the <i>SLC11A1</i> gene in humans causes resistance to tuberculosis. Barnes et al (2011) examined the frequency of the resistant allele in different towns in Europe and Asia and compared it to how long humans had been settled in the site ("duration of settlement"):
			{\| class="wikitable"
			\|-
			\| Duration of settlement (years) \|\| 8010,5260,4735,4010,3710,2810,2730,2310,2110,1955,1910,1300,378,194,130,110,91
			\|-
			\| Allele frequency \|\| 0.99,1.0,0.948,0.885,0.947,0.854,1.0,0.769,0.9956,0.979,0.865,0.922,0.821,0.842,0.734,0.766,0.772
	\|}		\|}

imported>Weigang: /* May 11. Correlation */

2017-05-13T13:50:17Z

May 11. Correlation

← Older revision		Revision as of 13:50, 13 May 2017
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	! Assignment #9. Due 5/18 (To be posted)		! Assignment #9. Due 5/18 (To be posted)
	\|- style="background-color:powderblue;"		\|- style="background-color:powderblue;"
	\|		\| # In their study of hyena laughter (or "giggle"), Mathevon et al (2010) asked whether sound spectral properties of the giggles are associated with age. Perform correlation analysis using data in the following table.
			{\| class="wikitable"
			\|-
			\| Age (years) \|\| 2,2,2,6,9,10,13,10,14,14,12,7,11,11,14,20
			\|-
			\| Frequency (Hz) \|\| 840,670,580,470,540,660,510,520,500,480,400,650,460,500,580,500
			\|}


	\|}		\|}