{"cells": [{"cell_type": "markdown", "metadata": {}, "source": ["# Exercise 9.1: Practice with HoloViews\n", "\n", "<hr>"]}, {"cell_type": "markdown", "metadata": {}, "source": ["**a)** In a population or size $N$ with frequency $p$ of allele A and frequency $q$ of allele a (with $q = 1 - p$), the variance of allele frequency $p$ across replicated populations is approximately\n", "\n", "\\begin{align}\n", "V \\approx pq\\left(1 - \\mathrm{e}^{-t/2N}\\right),\n", "\\end{align}\n", "\n", "where $t$ is the number of generations. Use HoloViews to plot this function version $t$ for some given values of $p$ and $N$. If you're feeling adventurous, you can make widgets to vary $p$ and $N$ and investigate how the variance changes.\n", "\n", "**b)** Recall the data set from [Exercise 8.2](exercise_8.2.ipynb) in which we analyzed the effects of neonicotinoid pesticides on bee sperm. Use HoloViews to make a scatter plot of the number of alive sperm versus number of dead sperm, with each point colored by whether they were treated with pesticide. As a reminder, the data set is stored in `~git/bootcamp/data/bee_sperm.csv`.\n", "\n", "**c)** 96 well plates are often used in analyzing biochemical reactions. Some absorbance data from a 96 well plate experiment are in the file `~git/bootcamp/data/96_well.csv`. (You will need to `git pull upstream master` to get the data set.) Use [HoloViews's HeatMap](http://holoviews.org/reference/elements/bokeh/HeatMap.html) element to make a display of the data. *Hint*: If you want to display a colorbar, you may need to also include `colorbar_opts={'bar_line_color': None}` in your `opts()` because of a possible bug in HoloViews for rendering colorbars."]}, {"cell_type": "markdown", "metadata": {}, "source": ["<br />"]}], "metadata": {"kernelspec": {"display_name": "Python 3", "language": "python", "name": "python3"}, "language_info": {"codemirror_mode": {"name": "ipython", "version": 3}, "file_extension": ".py", "mimetype": "text/x-python", "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", "version": "3.7.7"}}, "nbformat": 4, "nbformat_minor": 4}