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Linkprep
Creating LINKAGE style .pre and .dat files from AGRF style data. This creates
standard format input files for linkage analysis software from human
genotyping data.
Creating Mapmaker or R/qtl
input files
Converts genotyping and phenotyping data into mapmaker style input
files for use with MAPMAKER or R/QTL.
HumanMSD
Creates human genetic maps based on DeCode, Marshfield, and Genethon
genetic maps by using linear interpolation with UCSC physical map.
MouseMSD
A database interface to genetic and physical map data for mouse markers,
catering for aliases (as available on UCSC - January 2007).
Colour Haplotypes
Colours genotyping data in Allegro
output format based on the inferred haplotypes.
Haploclusters
Performs genome linkage disequilibrium (LD) mapping with case and
control haplotype data with both microsatellite and SNP markers.
Linkdatagen
Generates MERLIN and ALLEGRO input files from Affymetrix SNP chips
with marker subsets, using BRLMM genotyping calls, without having to use GCOS.
Limiting Dilution Analysis
The Limiting Dilution Analysis. Fit single-hit model to a dilution
series using complementary log-log binomial regression.
Log Rank Test
The log rank test of Survival Analysis. This is a method of testing
between two survival curves.
Mapwhere
A program that finds perfect and partial matches to motifs given by
weighted regular expressions
Marcoil
HMM-based coiled-coil prediction program
GABOS/GAFEP
Get A Bit Of Sequence/Get A Few Exon Primers
Compare Groups of Growth Curves
Compare Groups of Growth Curves performs a permutation test of the difference
between two groups of growth curves. It calculates all pairwise
comparisons between two or more groups of growth curves.
Testing between curves
A program that examines the difference between two curves, where the
curves represent averages of some measurement, taken over a number of
time points.
Quantitative Trait
Haplotype Analysis
A program to test whether a quantitative trait loci is in the vicinity
of a number of markers that are fully linked with each other.
Reordering genes
A program that reorders a list of gene names according to their unigene
names.
LIMMA
An R Library for Linear Models for Microarray Data. Uses linear models
for analysing designed microarray experiments and for assessing
differential expression.
StatMod
An R Library for Statistical Modelling and biostatistical analysis
including comparison of growth curves and the analysis of randomized
block designs.
GBIRP
Genotype-Based Identification of Relative Pairs - identifies pairs of
individuals who may be related to each other by comparing their
genotypes.
EffiSim
A script that calculates two measures of the efficiency of a genome-
wide mutation screen for recessive phenotypes and performs simulations
to confirm results
EffiSim Web Interface
This is a web interface to the EffiSim script above.
ParaCountStudio
A program to count cell numbers within an image.
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