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KRIS 1.1.6

• Update the packages according to R v4.0.0

KRIS 1.1.5

• Add the function to calculate pvalue from 2 different groups using regression model and allowing to correct for covariates
• Change the way to call function and fixed bugs for plot3views

KRIS 1.1.4

• Fixed some incorrect descriptions in the manual.

KRIS 1.1.3

• Fixed bugs in plot3views for mismatching color and pattern on a plot

KRIS 1.1.2

• Fixed bugs in read.bed

KRIS 1.1.1

• Updated and added more examples in plot3view

KRIS 1.1.0

• Added the function cal.pc.projection
• Moved replace.missing to for_parallel.R from principal.component.R
• Fixed bugs in test_plot3views.R

KRIS 1.0.4

• Changed URL in the CITATION file from Gitlab to CRAN
• Changed email in the DESCRIPTION file from Gmail to Official email
• Fixed misspelling in a manual of data

KRIS 1.0.3

• Updated URLs and added details of package in the DESCRIPTION file
• Updated manual of all functions according from CRAN’s comments

KRIS 1.0.2

• Fixed the help file for read.bed, read.bed, fst.each.snp.hudson and fst.hudson.

KRIS 1.0.1

• Fixed the help file for cal.pc.linear and rubikclust.

KRIS 1.0.0.0

Initial functions

• cal.pc.linear A function for linear principal component analysis (PCA)
• fst.each.snp.hudson A function for fixation index (Fst) calculation for all SNPs between two groups.
• fst.hudson A function for average fixation index (Fst) calculation between two groups.
• plot3views A function to create scatter plots in three views.
• read.bed Read the binary PLINK format (BED, BIM, and FAM)
• rubikclust A function for unsupervised clustering to detect rough structures and outliers.
• write.bed Write an list of SNP object to the binary PLINK format (BED, BIM, and FAM)
• xxt A function for calculating matrix multipication between a matrix and its transpose for large data.

Initial R data

• simsnp Synthetic dataset containing single nucleotide polymorphisms (SNP)
• sample_labels Synthetic dataset containing population labels for the dataset simsnp.

Initial example files

• example_SNP.bed Synthetic dataset containing single nucleotide polymorphisms (SNP) in binary format
• example_SNP.bim Simulated SNP information
• example_SNP.fam Simulated sample information

Updates

From the initial idea, some functions were changed their names:

• The name of function cal.PC.linear was changed to cal.pc.linear.
• The name of function plot.3views was changed to plot3views.
• The name of function rubikClust was changed to rubikclust.
• The name of function XXt was changed to xxt.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.