Fragment Analysis in R

Documentation for package ‘Fragman’ version 1.0.9

arrange.jm	Arrange data converted to joinmap code into a joinmap readable file
best.layout	complementary tools for layout
big.peaks.col	Peak search by first derivatives
detect.ladder	Ladder detection by correlation or confidence intervals
find.ladder	Ladder detection by correlation or confidence intervals
Fragman	Fragment analysis and automatic scoring
get.scores	complementary tools
homo.panel	complementary tools
homogenize.to.parentals	complementary tools
jm.conv	Scores to JoinMap converter
ladder.corrector	Ladder corrector attached to R environment
ladder.info.attach	Ladder detection and attachment to R environment
lapply_pb	complementary tools for Fragman
letter.to.jm	Letter to JoinMap code converter
my.plants	Cranberry biparental population
num.to.lett	Number to Letter code converter
overview	Assesing several plants with an overview
overview2	Assesing several plants with an overview
plot.fsa_stored	plot form fsa files stored with storing.inds
pullup	Applying pullup to channels/colors
read.abif	Read ABIF formatted files
reals	Finding the real peaks
saturate	Checking and correcting saturated peaks
score.markers	Fragment analysis scoring
separate	Separating peaks by a shift window
storing.inds	Extracting channel information
threshs	Customizing thresholds
transfft	Applying the fourier transformation to a data frame
transp	Creating color with transparency