nplplot: Plotting linkage and association results

Share:

This package provides routines for plotting linkage and association results along a chromosome, with marker names displayed along the top border. There are also routines for generating BED and BedGraph custom tracks for viewing in the UCSC genome browser. The data reformatting program Mega2 uses this package to plot output from a variety of programs.

Author
Robert V Baron <rvb5@pitt.edu>, Nandita Mukhopadhyay, Xinyu Tang, Daniel E. Weeks <weeks@pitt.edu>
Date of publication
2014-05-01 09:32:57
Maintainer
Daniel E. Weeks <weeks@pitt.edu>
License
GPL (>= 3)
Version
4.5
URLs

View on CRAN

Man pages

bedplot
Creation of BED and BedGraph custom tracks
genomeplot
Creation of Genome Graph files
lods1
LOD score table for chromosome 1
lods2
LOD score table for chromosome 2
nplplot
Plotting statistics along a chromosome
nplplot-internal
Internal nplplot.multi variables
nplplot.multi
Plotting linkage or association statistics for multiple...
nplplot.old
LOD score plotting (old version of nplplot)
prepareplot
Prepare input data files for bedplot and genomeplot

Files in this package

nplplot
nplplot/inst
nplplot/inst/extdata
nplplot/inst/extdata/lods1header.R
nplplot/inst/extdata/lods2header.R
nplplot/tests
nplplot/tests/Rallegro.07.R
nplplot/tests/RALLEGRO.07
nplplot/tests/Rallegro.07.Rout
nplplot/tests/RALLEGRO.07.hdr
nplplot/NAMESPACE
nplplot/data
nplplot/data/lods1.txt.gz
nplplot/data/lods2.txt.gz
nplplot/data/lods2header.rda
nplplot/data/lods1header.rda
nplplot/R
nplplot/R/nplplot.R
nplplot/R/nplplot.old.R
nplplot/R/prepareplot.R
nplplot/R/nplplot.multi.R
nplplot/R/bedplot.R
nplplot/R/genomeplot.R
nplplot/MD5
nplplot/DESCRIPTION
nplplot/man
nplplot/man/nplplot.Rd
nplplot/man/genomeplot.Rd
nplplot/man/lods2.Rd
nplplot/man/nplplot-internal.Rd
nplplot/man/prepareplot.Rd
nplplot/man/lods1.Rd
nplplot/man/nplplot.old.Rd
nplplot/man/nplplot.multi.Rd
nplplot/man/bedplot.Rd
nplplot/INDEX