MDS_Clus: MDS_Clus,

In Sautie/MALDITOFSpectraPA: Processing and analysis of MALDI_TOF spectra

Description

function for Multidimensional scaling and kmeans-based analysis of Maldi_Tof spectra

Usage

MDS_Clus(
  df_m,
  varCat1,
  value,
  dist = "euclidean",
  nc = 3,
  grah = "lab_mdsclus"
)

Arguments

df_m:	dataframe containing peaks and metadata
dist:	distances dist: "euclidean" (default value), "maximum", "manhattan", "canberra", "binary" or "minkowski"
varCat1:	categorical variable for choosing isolates, examples: "Taxonomie" ,"Genre", "Date.d.analyse" ,"Origine","Ruche", "Nutrition" , "Date.de.récolte" , "Lieu.de.la.ruche"
value:	level of the chosen categorical variable catVar1, examples: "Lactobacillus" ("Genre"), Taxonomie("Pediococcus pentosaceus"), "Erica cinerea" ("Nutrition"),...
grah:	graphs: lab_mdsclus,(default value) lb_mds, mdsclaing

Value

figures and statistics

Examples

   g<-MDS_Clus(df_Peaks, varCat1="Genre", value="Lactobacillus")
     source: https://rstudio-pubs-static.s3.amazonaws.com/274936_050c742fb3514bbaa87ce6ee2686af8c.html
              http://www.sthda.com/english/articles/31-principal-component-methods-in-r-practical-guide/122-multidimensional-scaling-essentials-algorithms-and-r-code/
              http://ugrad.stat.ubc.ca/R/library/mva/html/cmdscale.html

Sautie/MALDITOFSpectraPA documentation built on Dec. 31, 2020, 4:28 p.m.