Agronomy4future

Google Colab is essentially a Jupyter notebook environment, which means that typically only Python code works. However, it is also possible to use R code in Google Colab. If you’re unfamiliar with Google Colab, please read the post below to grasp its general concept. □ How to use Google Colab for Python (power tool to analyze data)? When opening a new Google Colab window, navigate to Runtime in the menu, choose Change runtime type, and a new window will appear,…

Read More Read More

Let’s upload one dataset to R. Now, I want to save this data as code so that I can store it in my web note. This is because it would be difficult to find the original dataset after a long time. Therefore, I want to save it as text code in a list on my web note. 1) using dput() First, we can use dput() function. 2) using datapasta() Second, we can use datapasta() function 3) using constructive() This is…

Read More Read More

I have a dataset as below. Now, I want to create a bar graph about this data. First, let’s summarize the data. Then, let’s create a bar graph. Now, to save space, I’d like to split the x-axis text into two rows using the following code. When you run the same code to create a bar graph, the resulting graph is shown below. Code summary https://github.com/agronomy4future/r_code/blob/main/Customizing_R_Graphs_Splitting_Text_into_Two_Rows.ipynb © 2022 – 2023 https://agronomy4future.com

© 2022 – 2023 https://agronomy4future.com

Here is one dataset. I want to add the mean of each treatment to a new column, and I am using the following code. However, the code is quite lengthy. Let’s simplify it using tapply() How about there are more variables? Now, I want to add the mean of the combination of treatment and environment. I want to calculate the mean of combination between A and North Full: https://github.com/agronomy4future/r_code/blob/main/Step_by_Step_Guide_to_Calculating_and_Adding_Variable_Means_in_R.ipynb We aim to develop open-source code for agronomy ([email protected]) © 2022…

Read More Read More

I have one dataset as below. Now, I’ll create a regression graph between grain number (GN) and average grain weight (AGW). I distinguished genotypes with different colors, and now I want to differentiate resistance (yes and no) using distinct shapes. Therefore, I’ll be changing the shape representation from genotype to resistance. However, the color is not currently applied to the legend. I aim to apply the provided color to the legend, and additionally, assign colors to represent different levels of…

Read More Read More

When analyzing regression, we typically assume that two continuous variables are situated in separate columns, allowing us to easily designate them as x and y. However, in many cases, data is organized vertically, and variables of interest are found within the same column. This vertical structuring is, in fact, the fundamental data arrangement when conducting data analysis. Now, let’s delve further into the discussion by examining the dataset. Let’s proceed by uploading the dataset.” This data pertains to iron content…

Read More Read More

In my previous post, I introduced how to summarize data, such as mean, standard deviation, and standard error. However, at that moment, I demonstrated how to summarize only one variable. □ Streamlined Data Summary in R STUDIO: Enhancing Bar Graphs with Error Bars Now, let’s discuss this further with a dataset. I would like to summarize the Yield data, including the mean, standard deviation, and standard error. I’ll use ddply() Now, I also want to summarize variables GN and AGW….

Read More Read More

When we want to change texts within a columns, you can have several methods which I already introduced before. □ How to Rename Variables within Columns in R? However, changing all texts and specific texts would be different. Let’s upload a data. Now, we can change the variables name as following code: How about changing the text in the ID column? I want to remove ‘Delta_’ and keep only the numbers. Will you change the text one by one as…

Read More Read More

In a folder, I have 5 different .csv files. I want to upload these files to R and combine all of them because the data format (number of columns and structure) is the same. While you can certainly upload them one by one, imagine a scenario where you have 100 datasets. Will you upload all 100 of them individually? No! That would be a waste of time. In such cases, you can use a simple code to upload multiple files…

Read More Read More

□ The Best Linear Unbiased Estimator (BLUE): Step-by-Step Guide using R (with AllInOne Package) In my previous post, I explained how to estimate dependent values from fitting models. Now I’ll explain how to add this predicted value to the original data using R. First, let’s upload data to R. Now, I’ll predict yield using the model. I believe that ‘row’ represents a random factor for each treatment, so I’d like to adjust the residuals using BLUP (Best Linear Unbiased Predictor),…

Read More Read More

In my previous post, I explained how to quantify phenotypic plasticity and introduced the concept of ‘responsiveness.’ □ Quantifying Phenotypic Plasticity of Crops I introduced a formula to calculate responsiveness as (Treatment – Control) / Control. Genotype Control Treatment Responsiveness A 100 90 -10.0% B 120 70 -41.7% C 115 90 -21.7% D 95 85 -10.5% E 110 105 -4.5% However, when analyzing data, the format may not always be the same as above. Mostly, treatments (independent variable) are arranged in…

Read More Read More

□ Graph Partitioning Using facet_wrap() in R Studio By following my previous post, you can understand how to obtain the figure below. If you copy and paste the code above into your R console, you can obtain the same figure as shown above. Now, I’d like to change the title format by removing the title border. Next, I’d like to draw a line in the title. Please refer to the code below. full code: https://github.com/agronomy4future/r_code/blob/main/How_to_customize_the_title_format_in_facet_wrap().ipynb © 2022 – 2023 https://agronomy4future.com

When we create time series graphs in R, it is sometimes necessary to display both dates and numbers on the x-axis. This is because when the x-axis is set to show dates only, it can be challenging to add text or other elements directly onto the graph. However, by using both dates and numbers on the x-axis, we can easily insert texts, lines, and other annotations. Let’s talk with data. and I made a line graph over date. But I…

Read More Read More