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Hello, I have SNP data from genotyping. I would like to estimate the error rate between replicated samples using R. How can I proceed? Thanks Meriam

Hello, I'm struggling to install a function called "fviz_nbclus". My code is the following: pkgs <- c("factoextra", "NbClust") install.packages(pkgs) library(factoextra) library(NbClust) # Standardize the data load("df4.rda") library(FunCluster) install.packages("fviz_nbclust") #fviz...

Dear all, I generated a circular dendrogram with R (see attached). I have a total of 360 landraces. What I want to do next is generate a different color for each cluster and also generate colors to show the country...

Dear all, I have a .csv file called df4. (15752 obs. of 264 variables). I apply this code but couldn't continue further other analyses, a warning message keeps coming up. Then, I want to determine max and min similarity...

Dear all, I run the following code and I get this graphic (Imageattached). What should I change in my code in order to adjust the overlapping objects? load("hc1.rda") library(cluster) library(ape) library(dendextend) library(circlize) library(RColorBrewer...

Dear all, I run the following code and I get this graphic (pdf attached). What should I change in my code in order to adjust the overlapping objects? load("hc1.rda") library(cluster) library(ape) library(dendextend) library(circlize) library...

Hi, I'm facing some issues when generationg a circular dendrogram. The labels on the left which are my countries are overlapping with the circular dendrogram (middle). Same happens with the labels (regions) located on the right. I run the...

Yes, sorry. I attached the file once again. Well, still getting the same warning. > class(genod) <- "numeric" Warning message: In class(genod) <- "numeric" : NAs introduced by coercion > class(genod) [1] "matrix" Then, I run the following code and it gives...

Yes I know. Sorry if I reposted this but it's simply because I've received an email mentioning that the file was too big that's why I modified my question and reposted it. I don't want to...

Here's a portion of what my data looks like (text file format attached). When running in R, it gives me this: > df4 <- read.csv(file = "mydata.csv", header = TRUE) > require(SNPRelate) > library(gdsfmt) > myd <- df4 > myd <- df4 > names(myd...

Thanks for your valuable clarifications. I tried all the steps again but the problem remains. In fact, "fviz_nbclust" is a function inside the package "factoextra". I run each step very carefully but the problem remains...It doesn't make...

I see... Here's a portion of what my data looks like (csv file attached). I run again and here are the results: df4 <- read.csv(file = "mydata.csv", header = TRUE) > require(SNPRelate)> library(gdsfmt)> myd <- df4> myd <- df4> names...