dlmap-internal {dlmap} | R Documentation |
Internal dlmap functions. These are generally not to be called by the user.
dlmap.detect.asreml(input, filestem, ...) dlmap.detect.lme(input, filestem) dlmap.localize.asreml(input, QTLperChr, ...) dlmap.localize.lme(input, QTLperChr) dlmap.map.det.asreml(input, s.chr, chrSet, prevLoc = NULL, ...) dlmap.map.det.lme(input, s.chr, chrSet, prevLoc = NULL) dlmap.map.loc.asreml(input, s.chr, chrSet, prevLoc = NULL, ...) dlmap.map.loc.lme(input, s.chr, chrSet, prevLoc = NULL) dlmap.test.asreml(input, chrSet, prevLoc = NULL, ...) dlmap.test.lme(input, chrSet, prevLoc = NULL) dlmap.merge(genCross, envData=NULL, step, fixpos, nperm, alpha, pindex=1, phename, idname, estmap=TRUE) dlmap.read(genfile, phefile, mapfile, phename, filestem) dlmap.calc.pos(exp.dat, step, fixpos)
The detect, localize, test and mapping functions form the basis of the
DLMapping algorithm. There are versions for each version of dlmap (making
use of either lme
or asreml
to fit the mixed models).
The merge function is used to combine the genotype and environmental data,
and also imputes missing values in the genotype data according to the Viterbi
algorithm. See fill.geno
for more details. Note that
individuals with no phenotypic response data are omitted in the merged
dataset. Individuals with phenotypic but no genotypic data are retained, but
the genotypes are not imputed.
Emma Huang and Andrew George
Huang, B.E. and George, A.W. Look before you leap: A New Approach to QTL Mapping (in preparation)