Learn R Programming

paramlink

The paramlink package has been superseded by the pedsuite. In particular, the main features of paramlink can now be found in the following packages:

  • pedtools: Basic handling of pedigrees and marker data
  • paramlink2: Parametric linkage analysis
  • forrel: Forensic applications
  • ribd: Relatedness coefficients and IBD triangle

Note that paramlink is not compatible with the pedsuite. It is maintained only for legacy purposes and should not be used in new projects.

Copy Link

Version

Install

install.packages('paramlink')

Monthly Downloads

267

Version

1.1-6

License

GPL (>= 2)

Issues

0

Pull Requests

0

Stars

1

Forks

0

Maintainer

Magnus Vigeland

Last Published

July 21st, 2025

Functions in paramlink (1.1-6)

merlin

MERLIN wrappers
pedModify

Modify the pedigree of 'linkdat' objects
pedParts

Pedigree subsets
setPlotLabels

Attach plot labels to a linkdat object
setModel

Set, change or display the model parameters for 'linkdat' objects
pedigreeLoops

Pedigree loops
plot.linkdat

Plot pedigrees with genotypes
twoMarkerDistribution

Genotype probability distribution
twoloops

A consanguineous pedigree
toyped

Toy pedigree for linkage analysis
transferMarkerdata

Transfer marker data
readDatfile

Read dat file in LINKAGE format
relatednessCoeff

Relatedness coefficients
Familias2linkdat

Convert 'Familias' output to linkdat objects
dominant

Example pedigree for linkage analysis
IBDestimate

Relatedness estimation
as.matrix.linkdat

linkdat to matrix conversion
as.data.frame.linkdat

linkdat to data.frame conversion
allGenotypes

Genotype combinations
IBDtriangle

IBD triangle plot
examineKinships

Check pedigree for relationship errors
LR

Likelihood ratios of pedigree hypotheses
hasCA

Pairwise common ancestors
lod.peaks

LOD score peaks
lod

Two-point LOD score
exclusionPower

Power of exclusion
is.linkdat

Is an object a linkdat object?
likelihood

Pedigree likelihood
linkdat

Linkdat objects
Xped

Example pedigree with X-linked disease pattern.
linkres

S3 methods for class 'linkres'.
paramlink-package

paramlink: Parametric Linkage and Other Pedigree Analysis in R
mendelianCheck

Check for Mendelian errors
linkage.power

Power of a linkage study
markerSim

Marker simulation
linkageSim

Simulate markers linked to a disease locus.
markers

Marker functions
randomPed

Random pedigree
plotPedList

Plot a list of pedigrees.
setAvailable

Functions for modifying availability vectors
pedCreate

Create simple pedigrees
relationLR

Relationship Likelihood Ratio
simpleSim

Unconditional marker simulation
oneMarkerDistribution

Genotype probability distribution
showInTriangle

Add points to the IBD triangle
mergePed

Merge two pedigrees