supportinterval
(Package: mpMap) :
Calculate support interval for detected QTL
Calculates support interval for QTL based on Wald profile and QTL position
● Data Source:
CranContrib
● Keywords:
● Alias: supportinterval
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summary.mpqtl
(Package: mpMap) :
Summary of mpqtl object
Prints a summary of the detected QTL
● Data Source:
CranContrib
● Keywords:
● Alias: summary.mpqtl
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summary.mpprob
(Package: mpMap) :
Summary of mpprob object
Summarizes details about underlying mpcross object as well as descriptive statistics about estimated founder haplotypes
● Data Source:
CranContrib
● Keywords:
● Alias: summary.mpprob
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Summarizes mpcross object in terms of number of markers, lines, type of markers, and quality of markers
● Data Source:
CranContrib
● Keywords:
● Alias: summary.mpcross
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Reduces an mpprob object down to a specified set of chromosomes, markers and/or lines
● Data Source:
CranContrib
● Keywords:
● Alias: subset.mpprob
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Reduces an mpcross object down to a specified set of chromosomes, markers and/or lines
● Data Source:
CranContrib
● Keywords:
● Alias: subset.mpcross
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sim.sigthr
(Package: mpMap) :
Simulate a significance threshold for (composite) interval mapping
Generate a significance threshold by simulating from the null hypothesis. Phenotypic values for the observed genetic data are simulated to represent data with no QTL, and a genomewide p-value threshold is calculated.
● Data Source:
CranContrib
● Keywords:
● Alias: sim.sigthr
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sim.mpped
(Package: mpMap) :
Generate pedigrees from multi-parent designs
Generates pedigrees for 4-way or 8-way MAGIC designs, with specifications given by the user. These pedigrees can be used to simulate datasets with other functions in the mpMap package.
● Data Source:
CranContrib
● Keywords:
● Alias: gen4ped, gen8ped, sim.mpped
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sim.mpcross
(Package: mpMap) :
Simulate data from multi-parent designs
Data is simulated according to a pedigree, map and QTL model
● Data Source:
CranContrib
● Keywords:
● Alias: sim.mpcross
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read.mpcross
(Package: mpMap) :
Construct mpcross objects from datafiles
Generate an mpcross object by reading in components from files - requires founders marker data, finals marker data, pedigree, and IDs for all lines. Marker map and phenotypic data are optional.
● Data Source:
CranContrib
● Keywords:
● Alias: read.mpcross
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