R Statistical Package

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Questions related to R Statistical Package

How to match 1:1 case:control in Rstudio?

Hi, I have a database with 300 patients, some of them controls and some cases. I want to randomly select and match 96 cases with 96 controls. I want to find a match 1:1, that is, for each control...

04 April 2022 8,872 1 View

Why does stomatal conductance and sap flow react oppositely to VPD?

Why does stomatal conductance decrease and sap flow increase with raising VPD? Open stomata should promote higher transpiration flow via cohesion-tension mechanism and thus when they close, the...

20 October 2021 9,674 6 View

How to analyze missing values?

Hello researchers! I am doing a multivariate linear regression model, 4 of my predicting variables are "yes/ no/ I don't know" questions (analyzed as dummy variables), I decided to code the I...

04 April 2021 7,591 9 View

How can I make unsupervised clustering of trees species using algorithms like HAC, Kmeans... in R?

I am working on the development of multi-species volume allometric equation from diameter (DBH). I would like to form groups of species with the largest possible volume-diameter correlations by...

20 January 2021 5,895 5 View

Can you recommend any packages in R which are able to create a ternary plot / triplot?

I already used the triplot() function of package klaR, but I cannot label points in this function by the row and column names of the distance-matrix. Any ideas?

26 November 2020 1,334 12 View

How to fix the warning message of "Warning message: Setting row names on a tibble is deprecated" in R?

I am using "PLSPM" package in R. I received a warning message of "Setting row names on a tibble is deprecated". I am not an expert in programming. I want to know what are the effects of this...

25 November 2020 10,212 5 View

How to customize a 'plt.var' plot from CCA package?

Hello, I'm trying to customize a CCA biplot made with the plt.var function from the CCA package. I need to reduce the size of the labels or be able to move those labels because they overlap on...

01 August 2020 3,092 3 View

Imputation of 3 level dataset- what if I have no variable in the 3rd level?

Hello everyone, I have data that was collected in 20 sites across NYC (ie level 3 - site). Each site, approximately 10 participants were recruited and baseline characteristic data was gathered...

01 August 2020 2,053 6 View

How to calculate mutual information and joint entropy for the following datasets?

I have the following data set (attached) and I would like to calculate mutual information and joint entropy between multiple columns (like for A,B,D,E or C,D,E,F,G etc.). I have gone through R...

30 July 2020 3,009 2 View

Any suggestion on R Packages or Codes for plots like Severity-Frequency?

I would like to create a graph where it looks like the pictures attached below using R software. Is there any packages or codes that can help me do it? First picture was hand-drawn. Second...

30 July 2020 4,859 2 View

How to add texture in ggplot?

Hi all, I am using the following code to obtain the bar plot uisng the R package Ggpubr. I am required to add texture into the bar plots instead of color. I could not find any option for adding...

30 July 2020 1,026 3 View

How to solve an NA output on the vegan package?

Hi dear all, I am using the vegan package to estimate diversity index in 16s soil metagenomic data. I have worked ok with several samples but with one of them I am getting this output: >...

14 July 2020 2,787 2 View

How to convert .txt into plink files (ped/map or bed/bim/fam)?

I have a huge oncoarray_genotype_XXXX.txt file with 11.7 GB size. I would like to convert this file into adequate files for analyzing in plink software. However, I could not find how to conduct...

09 July 2020 9,769 2 View

Maxent Species Distribution Modelling in R - finding probabilities for known occurrences withheld from the training/validation data?

Good afternoon, I have recently developed a Maxent distribution model in R for a reptile endemic to Madagascar, using native-range presence-only data. The model performs well. I have now...

06 July 2020 1,528 1 View

How can I perform sensitivity analysis using R?

I have below model: X = A*B Where A = a list of values with Lognormal distribution (size = 13) and B = another list of values with Lognormal distribution (size = 13) How can I perform 1st...

06 July 2020 2,069 1 View

Statistical Model Building - multifactorial mixed ANOVA. How to deal with nonparametric data?

Hello everybody, I would greatly appreciate your help with stat. analysis. In my experiment I would like to compare 5 types of foodstuffs produced by 3 types of manufacturers (A,B,C, each type...

02 July 2020 6,830 3 View

How to find properties of a network plot?

Hi, I constructed a network with igraph showing the connections between bacterial groups in three different systems (suppose A, B and C). Each node represented an OTU/ASV and edge represented...

22 June 2020 7,739 1 View

How to check the relationship between 10 groups based on 4 variables.How to show the multivariate relationships among Groups?

My data- set has 5 variables. One of the variables is the group . There are 10 different groups. How to check the relationships between the groups based on the other 4 variables. I want to check...

20 June 2020 3,509 3 View

Why do the rentrez and NCBI web searches return different number of hits?

I am querying the GenBank and getting different numbers when compare searches in R (rentrez package) to the Nucleotide db at NCBI website. For example, entrez_search(db="nuccore", term =...

18 June 2020 7,276 3 View

How do I make sure that all levels of a factor is resampled evenly during a train / test portion of LDA in R?

I am attempting to create train and test data for an LDA. I keep getting an error message that my test and train data have different levels of different factors for one of my factors. Here is the...

17 June 2020 9,080 3 View

May anyone recommend me a source for learning R programming language and R packages for biological research disciplines?

I want to learn R programming language but I do not know a source from which I can start, I need it for statistical analysis of Ecological, Molecular, floristic, and Taxonomic studies.

15 June 2020 5,106 9 View

MCMC inference for COVID-19 SEIR model?

Hi, I have a standard SEIR model and would like to run a simple Bayesian MCMC (Metropolis-Hastings) inference on COVID data. How do you do this on R? Many thanks!

08 June 2020 6,238 1 View

How to perform Multiple Linear Regression in R where Number of Independent Variables is Greater than Cases?

I have a dataset with 75 independent variables and only 30 cases/ samples. function lm isn't working as there are limits, such as when you have more predictors than cases you run into issues in...

05 June 2020 6,965 2 View

What is the best Feature Selection Algorithm for Multiple Linear Regression?

I have a quite a large dataset of 75 features and one dependent variable where all are continuous. I want to do a MLR. and want to reduce the number of features. But there are many feature...

05 June 2020 8,877 22 View

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