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.
|Author||Gabriel Margarido [aut], Marcelo Mollinari [aut, cre], Karl Broman [ctb], Augusto Garcia [ctb]|
|Date of publication||2013-09-09 20:03:53|
|Maintainer||Marcelo Mollinari <firstname.lastname@example.org>|
add_drop: Add or Drop Markers From a Sequence
compare: Compare all possible orders (exhaustive search) for a given...
def.rf.3pts: Three-point analysis of genetic markers
draw.map: Draw a genetic map
example.out: Data from a full-sib family derived from two outbred parents
fake.bc.onemap: Simulated data from a backcross population
fake.f2.onemap: Simulated data from a F2 population
group: Assign markers to linkage groups
make.seq: Create a sequence of markers
map: Construct the linkage map for a sequence of markers
map_func: Mapping functions Haldane and Kosambi
marker.type: Informs the segregation patterns of markers
onemap-internal: Internal onemap functions
onemap-package: Software for constructing genetic maps
order.seq: Search for the best order of markers combining compare and...
rcd: Rapid Chain Delineation
read.mapmaker: Read data from a Mapmaker raw file
read.outcross: Read data from a segregating full-sib population
record: Recombination Counting and Ordering
rf.2pts: Two-point analysis between genetic markers
rf.graph.table: Plots pairwise recombination fractions and LOD Scores using a...
ripple.seq: Compares and displays plausible alternative orders for a...
set.map.fun: Defines the default mapping function
try.seq: Try to map a marker into every possible position between...
ug: Unidirectional Growth
write.map: Write a genetic map to a file