JK

[Meta-Analysis] Mining Academic Papers from SCOPUS with Pybliometrics in Python

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SCOPUS is one of the largest abstract and citation databases, providing access to a wide range of peer-reviewed literature across various disciplines. It ensures researchers have access to high-quality, up-to-date academic papers, conference proceedings, and other scholarly materials. Pybliometrics is a Python library that streamlines the retrieval of bibliometric data from SCOPUS. It simplifies accessing … Read more

Stepwise Regression: A Practical Approach for Model Selection using R

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Stepwise selection, forward selection, and backward elimination are all methods used in the context of building statistical models, specifically regression models, where the goal is to select the most relevant predictors. In this section, I’ll introduce one by one. Let’s generate one dataset. This dataset includes grain yield data, along with measurements of stem biomass, … Read more

In R, how to check the data structure?

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When uploading data to R, we first need to check the data structure before analyzing it. Here are some tips for checking the data structure in R. First, I’ll upload a dataset from my GitHub. In this dataset, let’s check the structure of the data. ■ Code to display the first or last certain rows … Read more

A Practical Guide to Data Normalization using Z-Tests in Python

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Today, I’ll introduce one method for data normalization, utilizing the biomass with N and P uptake data available on my GitHub. I also aim to create regression graphs illustrating the relationship between biomass and either nitrogen or phosphorus. First, I’ll generate a regression graph for biomass with either nitrogen or phosphorus to observe the data … Read more

Coding Light Spectrum Curves for Plant Growth in R

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Let’s say we collected relative light intensity data across a wide range of the light spectrum in an LED experiment. and I’d like to create light spectrum curves regarding relative light intensity. First, I’ll define wavelength colors. The color at different ranges of wavelengths is always the same, so if we run this code, we … Read more

[Data article] Data Normalization Techniques: Excel and R as the Initial Steps in Machine Learning

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In my previous post, I introduced the necessity of data normalization in visualizing data. By following that post, you may gain an understanding of how we can organize data according to our preferences. □ Why is data normalization necessary when visualizing data? Today, I’ll introduce various methods for data normalization, utilizing the biomass with N … Read more

[Data article] Why is data normalization necessary when visualizing data?

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Data normalization is necessary when visualizing data for several key reasons, and I believe the most important reason is for scale uniformity. Different data variables can have vastly different scales and units. For example, grain yield might be in Mg/ha, while nutrient contents might typically range from %. Normalizing these data to a common scale … Read more

How to draw a y-axis border when using facet_wrap() in R? (feat. scales=”free”)

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Here is one dataset, and I’ll use facet_wrap() to create bar graphs. First, let’s summarize the data. Then, I’ll create a bar graph using facet_wrap() to divide panels by irrigation. Now, I want to draw a y-axis border for the ‘Irrigation_Yes’ panel. We can achieve this simply by adding scales=”free”. We aim to develop open-source … Read more

How to randomize treatments using R?

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Setting up experimental design according to your experiment goal is the first step to achieve your experiment’s success. In Agronomy studies, experimental design involves the combination of treatments deployed in the field, and these treatments should be randomized. Randomization is important in experimental design as it helps our experiments avoid biases due to physical or … Read more

Achieving Smooth Curve Graphs with R

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□ How to convert character to POSIXct format in R? In my previous post, I created a curve graph like the one shown below. The curve on the graph appears to be not very smooth, and I want to make it smoother. Therefore, I will add geom_smooth(), but the method will be method=”gam” code summary: … Read more

How to convert character to POSIXct format in R?

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Here is one dataset Let’s check the data type of each variable. The time column is in character format. When opening the data in Excel, it is considered text. I wish to create a time series graph, but this cannot be accomplished when the variables are in text format. Therefore, we need to convert the … Read more

Summarizing Data by Group: Mean and Standard Error with MS Azure

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□ Creating an Azure SQL Database: A step-by-step guide In my previous post, I introduced how to set up Azure SQL Database. Today, let’s practice some SQL coding! 1) to create data table I just created two data tables YieldData, and BiomassData. 2) to summarize data I will summarize the data tables by calculating the … Read more

Categories SQL

How to add separate text to panels divided by facet_wrap() in R?

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In my previous posts, I introduced how to divide panels in one figure using facet_wrap(). Today, I’ll introduce how to add separate text to panels. First, let’s make sure we have the required packages installed. I’ll create a dataset as shown below: Next, I’ll reshape the dataset into columns to facilitate data analysis. And then, … Read more

The Agrivoltaics Image created from DALL∙E3

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DALL·E3, developed by OpenAI, is an advanced AI model capable of generating images from textual descriptions. It can create images based on a wide variety of prompts, ranging from straightforward descriptions to more imaginative or abstract concepts. ChatGPT – DALL·E (openai.com) I requested images from DALL·E depicting Agrivoltaics farming, and these are the results.

Categories AI

Quantifying pre- and post-anthesis heat waves on grain number and grain weight of contrasting wheat cultivars

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Quantifying pre- and post-anthesis heat waves on grain number and grain weight of contrasting wheat cultivars The study titled “Quantifying pre- and post-anthesis heat waves on grain number and grain weight of contrasting wheat cultivars” investigates the impact of heat stress on wheat productivity. As temperatures rise, wheat faces challenges in maintaining grain yield. Heat … Read more

How to summarize data using Python?

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In my previous post, I demonstrated how to create a data table using Python. If you’re interested, please refer to the post below. ■ How to create a data table in Python? I’ll summarize this data by mean and standard error. full code: https://github.com/agronomy4future/python_code/blob/main/How_to_summarize_data_using_Python.ipynb

Efficient Data Management: Variable Filtering in SAS Studio

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Today, I’ll introduce how to filter variables after uploading data to SAS Studio. First, let’s upload data to SAS Studio. I’ll summarize data based on Treatment_modified. I want to summarize for each unique ID. So, I’ll add numbers from 1 up to the end. and I’ll summarize data again. Then, I’ll download this data to … Read more

Categories SAS

Exploring Machine Learning Fundamentals: Predicting Survival on the Titanic

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In 2024, one of my goals is to learn machine learning and publish a crop physiology paper in an academic journal using machine learning. While taking online or offline courses of machine learning, I discovered Kaggle, a popular platform for data science and machine learning competitions, datasets, and tutorials. Kaggle provides excellent datasets for practicing … Read more