BinMatInput_ordination: Example input data containing a consolidated binary matrix...

Description Usage Format Examples

Description

Example input data containing a consolidated binary matrix with grouping information

Usage

1

Format

A dataframe with columns for loci, and rows for samples. Grouping information is in the second column.

Examples

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data(BinMatInput_ordination)
mat = BinMatInput_ordination
group.names(mat)
scree(mat)
shepard(mat)
clrs = c("red", "green", "black")
shp = c(16,16,16)
nmds(mat, colours = clrs, shapes = shp, labs = TRUE)

Example output

[1] "Africa"    "Australia" "Europe"   
initial  value 7.158898 
iter   5 value 4.062583
iter  10 value 3.951154
iter  15 value 3.911452
final  value 3.873089 
converged
initial  value 17.256889 
iter   5 value 13.318548
iter  10 value 10.281815
iter  15 value 9.885853
iter  20 value 9.230169
iter  25 value 8.712386
iter  30 value 8.413392
final  value 8.314316 
converged
initial  value 23.145184 
iter   5 value 15.519401
iter  10 value 15.224397
iter  10 value 15.216857
iter  10 value 15.210646
final  value 15.210646 
converged
initial  value 40.284721 
iter   5 value 33.922426
final  value 32.437297 
converged
NULL
initial  value 23.145184 
iter   5 value 15.519401
iter  10 value 15.224397
iter  10 value 15.216857
iter  10 value 15.210646
final  value 15.210646 
converged
NULL
initial  value 23.145184 
iter   5 value 15.519401
iter  10 value 15.224397
iter  10 value 15.216857
iter  10 value 15.210646
final  value 15.210646 
converged
NULL

BinMat documentation built on March 13, 2020, 3:11 a.m.