onemap: Software for constructing genetic maps in experimental crosses: full-sib, RILs, F2 and backcrosses

Analysis of molecular marker data from model (backcrosses, F2 and recombinant inbred lines) and non-model systems (i. e. outcrossing species). For the later, it allows statistical analysis by simultaneously estimating linkage and linkage phases (genetic map construction). All analysis are based on multipoint approaches using hidden Markov models.

AuthorGabriel Margarido [aut], Marcelo Mollinari [aut, cre], Karl Broman [ctb], Augusto Garcia [ctb]
Date of publication2013-09-09 20:03:53
MaintainerMarcelo Mollinari <mmollina@usp.br>
LicenseGPL-3
Version2.0-4

View on CRAN

Functions

acum Man page
add_drop Man page
add.marker Man page
adjust.rf.ril Man page
avoid.reverse Man page
Cindex Man page
codif.data Man page
comb Man page
comb.ger Man page
compare Man page
cr2pts Man page
cr3pts Man page
def.rf.3pts Man page
diplo Man page
draw.map Man page
draw.order Man page
draw.rf.inter Man page
draw.try Man page
drop.marker Man page
est.map.c Man page
example.out Man page
fake.bc.onemap Man page
fake.f2.onemap Man page
group Man page
haldane Man page
kosambi Man page
make.seq Man page
map Man page
map_func Man page
marker.type Man page
onemap Man page
onemap-package Man page
order.seq Man page
perm.pars Man page
perm.tot Man page
phases Man page
plotFunction.out Man page
print.bc.onemap Man page
print.compare Man page
print.f2.onemap Man page
print.group Man page
print.order Man page
print.outcross Man page
print.rf.2pts Man page
print.rf.3pts Man page
print.riself.onemap Man page
print.risib.onemap Man page
print.sequence Man page
print.try Man page
rcd Man page
read.mapmaker Man page
read.outcross Man page
record Man page
rem.amb.ph Man page
return.geno Man page
rf.2pts Man page
rf.graph.table Man page
ripple.seq Man page
seriation Man page
ser.ord Man page
set.map.fun Man page
try.seq Man page
ug Man page
write.map Man page

Files

onemap
onemap/inst
onemap/inst/BUGS
onemap/inst/CITATION
onemap/inst/HISTORY
onemap/inst/example
onemap/inst/example/example.out.txt
onemap/inst/example/fake.bc.onemap.raw
onemap/inst/example/fake.f2.onemap.raw
onemap/inst/doc
onemap/inst/doc/Tutorial_Onemap_reduced_version.Rnw
onemap/inst/doc/Tutorial_Onemap_reduced_version.pdf
onemap/inst/doc/Tutorial_Onemap_reduced_version.R
onemap/src
onemap/src/hmm_out.h
onemap/src/twopts.c
onemap/src/threepts.h
onemap/src/hmm_out.c
onemap/src/twopts.h
onemap/src/Makevars.win
onemap/src/threepts.c
onemap/NAMESPACE
onemap/data
onemap/data/fake.bc.onemap.RData
onemap/data/example.out.RData
onemap/data/fake.f2.onemap.RData
onemap/R
onemap/R/read.outcross.R onemap/R/make.seq.R onemap/R/rf.2pts.R onemap/R/phases.R onemap/R/cr2pts.R onemap/R/avoid.reverse.R onemap/R/ripple.seq.R onemap/R/ug.R onemap/R/marker.type.R onemap/R/read.mapmaker.R onemap/R/drop.marker.R onemap/R/map.R onemap/R/adjust.rils.R onemap/R/rcd.R onemap/R/order.seq.R onemap/R/map_func.R onemap/R/try.seq.R onemap/R/defunct.R onemap/R/rf.graph.table.R onemap/R/comb.ger.R onemap/R/add.marker.R onemap/R/seriation.R onemap/R/group.R onemap/R/permutations.R onemap/R/est.map.c.R onemap/R/compare.R onemap/R/write.map.R onemap/R/return.geno.R onemap/R/codif.data.R onemap/R/zzz.R onemap/R/record.R onemap/R/draw.map.R onemap/R/acum.R
onemap/vignettes
onemap/vignettes/figures
onemap/vignettes/figures/tutorial.pdf
onemap/vignettes/figures/rconsole.png
onemap/vignettes/Tutorial_Onemap_reduced_version.Rnw
onemap/MD5
onemap/build
onemap/build/vignette.rds
onemap/DESCRIPTION
onemap/LICENSE.note
onemap/man
onemap/man/try.seq.Rd onemap/man/read.mapmaker.Rd onemap/man/onemap-package.Rd onemap/man/add_drop.Rd onemap/man/example.out.Rd onemap/man/group.Rd onemap/man/map.Rd onemap/man/fake.f2.onemap.Rd onemap/man/rf.graph.table.Rd onemap/man/ug.Rd onemap/man/onemap-internal.Rd onemap/man/set.map.fun.Rd onemap/man/fake.bc.onemap.Rd onemap/man/read.outcross.Rd onemap/man/marker.type.Rd onemap/man/rcd.Rd onemap/man/map_func.Rd onemap/man/record.Rd onemap/man/draw.map.Rd onemap/man/compare.Rd onemap/man/def.rf.3pts.Rd onemap/man/seriation.Rd onemap/man/ripple.seq.Rd onemap/man/order.seq.Rd onemap/man/write.map.Rd onemap/man/make.seq.Rd onemap/man/rf.2pts.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.