R라딘

Hello, This posting is about 16S rRNA microbiomal function prediction analysis. There are three main tools for functional prediction of bacterial microbiomes such as PICRUSt, FAPROTAX, Tax4Fun2. All of these contains weak points and strong points. In my case, i prefer to use Tax4Fun2 because of analysis pipeline. Brifely, 16S rRNA sequence data will be blasted, and highest similarity chromosome ..

Hello, This is about correlation analysis among factors. The correlation analysis used to lots of study area. In my case, microbiome and enviornmental factors are analyzed by correlation methods. "Hmisc" package is used in RStudio. Let's follow the below steps to analysis. 1. Install packages install.packages("Hmisc") install.packages("xlsx") 2. Run packages library(Hmisc) library(xlsx) 3. Set c..

Hello, This is about correlation analysis among factors. The correlation analysis used to lots of study fields. In my case, i used to analysis between microbiome and environmental factors. We used "corplot" and "PerformanceAnalytics" in Rstudio. You can follow up with following steps below. 1. Install Packages #+++++++++++++++++++++++++Install Packages++++++++++++++++++++++++++++++++++++# instal..

Hello, Heatmap is one of the most frequently visualized method on SCI papers. This is the method how to heatmap visualize in Rstudio. 1. Install Packages # Install Library install.packages("stats") install.packages("gplots") install.packages("RColorBrewer") 2. Run Packages # Loads Library library(stats) library(gplots) library(RColorBrewer) 3. Set the Heatmap color # Heatmap color scalegreenblue..

Hello, There are several method of statistical analysis between groups such as ANOSIM, ANOVA, PERMANOSIM PERMANOVA. This Posting is about Analysis of Similiarity (ANOSIM). The interpretation of ANOSIM is well explained below of Google WIKIPedia. https://en.wikipedia.org/wiki/Analysis_of_similarities Theory, equation, interpretation, etc. Here is about how to statistically analysis the data by R ..

Hello, When you work on RStudio, you should notify which directory are you using. Because, the output files will be created on working directory. Here is the method of default setting of working directory. 1. Run the RStudio and you can see the below picture. Here you can set working directory by default. 2. Open the Global Option and fill in directory in R sessions where you want to get output ..

Hello, Beta-diversity is one of the mostly used analysis method in microbiome community composition study. Diversity has three kind of scale; Alpha-, Beta-, Gamma-. What is the difference? Simply, The group size are getting bigger from Alpha to Gamma. Alpha diversity is the diversity within a particular area or ecosystem; usually expressed by the number of species (i.e., species richness) in tha..

Hello, When we input dataframe from R, header = TRUE & hearder = FALSE is frequently used. The meaning is below. header = TRUE Row] Fill in the data with first row as variables. header = FALSE 행] Fill in the data without first row as variables, and first raw will be data. It's pretty simply, right? After use the "header = FALSE", we can fill in variable names by default. colnames(dataset)

Hello, There are several automation programs. Ui.Path of Microsoft, Python, R, and Java etc.. Most of all, Ui.Path is only for automation program. Ui.Path will be posted in the future, and today automation with R will be posted. Firstly, Install R program and RStudio. Second, launch RStudio and install automation packages with command below. The Package name is "KeyboardSimulator" ##############..