53 lines
2.4 KiB
Plaintext
53 lines
2.4 KiB
Plaintext
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{
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"cells": [
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{
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"cell_type": "markdown",
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"id": "0a7b652b-7846-464c-acf3-6629ba66a192",
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"metadata": {},
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"source": [
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"# Create a standalone Python program\n",
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"\n",
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"The instructions for this exercise are in this Jupyter notebook, but to successfully complete the exercise, you need to write a plain Python `.py` file called `plot_pcr_data.py` that runs from the command line. Write your program so that when you run it like this:\n",
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"\n",
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" python plot_pcr_data.py pcr_sample_1.csv\n",
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"\n",
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"It will read load the CSV file named `pcr_sample_1.csv` and save a plot called `pcr_sample_1.csv.png`. This data file is the result of a [real-time PCR](https://en.wikipedia.org/wiki/Real-time_polymerase_chain_reaction) experiment in a 6 well plate. The plot should plot number of cycles on the X axis and fluorescence intensity on the Y axis. There should be a line for the data from each well in the experiment.\n",
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"\n",
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"Hints:\n",
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"\n",
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"- Remember that you can get the command-line arguments to a python program by importing the `sys` module and accessing the `sys.argv` variable, which is a list of strings. So the filename with the data is provided as a command-line argument to your python program.\n",
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"- Read the CSV data from the provided filename using Pandas `read_csv()` function.\n",
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"- Plot the results with seaborn's `lineplot()` function.\n",
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"- Save this figure (with matplotlib.pylot's `savefig()`) to a file with the name equal to the original file name with `.png` appended to it (e.g. for the above example with `pcr_sample_1.csv` as input, save the figure to `pcr_sample_1.csv.png`).\n",
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"\n",
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"When you are done with your program `plot_pcr_data.py`, upload it to the directory for this exercise. I will run it with a new CSV data file from a different PCR experiments to check that it works.\n",
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"\n",
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"With `pcr_sample_1.csv`, your plot should look like this:\n",
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"\n",
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""
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]
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}
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],
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"metadata": {
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"kernelspec": {
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"display_name": "Python 3 (ipykernel)",
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"language": "python",
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"name": "python3"
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},
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"language_info": {
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"codemirror_mode": {
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"name": "ipython",
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"version": 3
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},
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"file_extension": ".py",
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"mimetype": "text/x-python",
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"name": "python",
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"nbconvert_exporter": "python",
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"pygments_lexer": "ipython3",
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"version": "3.11.10"
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}
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},
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"nbformat": 4,
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"nbformat_minor": 5
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}
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