Learn R Programming

⚠️There's a newer version (3.2.1) of this package.Take me there.

onemap (version 2.0-1)

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

Description

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.

Copy Link

Version

Install

install.packages('onemap')

Monthly Downloads

662

Version

2.0-1

License

GPL-3

Maintainer

Gabriel Alves Margarido

Last Published

October 29th, 2012

Functions in onemap (2.0-1)

fake.f2.onemap

Simulated data from a F2 population
record

Recombination Counting and Ordering
add_drop

Add or Drop Markers From a Sequence
write.map

Write a genetic map to a file
group

Assign markers to linkage groups
rcd

Rapid Chain Delineation
order.seq

Search for the best order of markers combining compare and try.seq functions
onemap-internal

Internal onemap functions
compare

Compare all possible orders (exhaustive search) for a given sequence of markers
rf.graph.table

Plots pairwise recombination fractions and LOD Scores using a color scale.
map

Construct the linkage map for a sequence of markers
def.rf.3pts

Three-point analysis of genetic markers
read.outcross

Read data from a segregating full-sib population
make.seq

Create a sequence of markers
set.map.fun

Defines the default mapping function
map_func

Mapping functions Haldane and Kosambi
marker.type

Informs the segregation patterns of markers
read.mapmaker

Read data from a Mapmaker raw file
ripple.seq

Compares and displays plausible alternative orders for a given linkage group
try.seq

Try to map a marker into every possible position between markers
onemap-package

Software for constructing genetic maps
fake.bc.onemap

Simulated data from a backcross population
example.out

Data from a full-sib family derived from two outbred parents
draw.map

Draw a genetic map
rf.2pts

Two-point analysis between genetic markers
ug

Unidirectional Growth
seriation

Seriation