bios2mds: From BIOlogical Sequences to MultiDimensional Scaling

Bios2mds is primarily dedicated to the analysis of biological sequences by metric MultiDimensional Scaling with projection of supplementary data. It contains functions for reading multiple sequence alignment files, calculating distance matrices, performing metric multidimensional scaling and visualizing results.

AuthorJulien Pele with Jean-Michel Becu, Herve Abdi, and Marie Chabbert
Date of publication2012-06-05 11:16:15
MaintainerMarie Chabbert <marie.chabbert@univ-angers.fr>
LicenseGPL
Version1.2.2

View on CRAN

Functions

bios2mds Man page
bios2mds-package Man page
col.group Man page
dif Man page
dis Man page
export.fasta Man page
extract.cluster Man page
gpcr Man page
import.fasta Man page
import.msf Man page
kmeans.run Man page
mat.dif Man page
mat.dis Man page
mmds Man page
mmds.2D.multi Man page
mmds.2D.plot Man page
mmds.3D.plot Man page
mmds.plot Man page
mmds.project Man page
random.msa Man page
scree.plot Man page
sil.score Man page
sub.mat Man page
write.mmds.pdb Man page

Files

bios2mds
bios2mds/MD5
bios2mds/data
bios2mds/data/gpcr.rda
bios2mds/data/datalist
bios2mds/data/sub.mat.rda
bios2mds/man
bios2mds/man/gpcr.Rd bios2mds/man/col.group.Rd bios2mds/man/scree.plot.Rd bios2mds/man/random.msa.Rd bios2mds/man/write.mmds.pdb.Rd bios2mds/man/mat.dis.Rd bios2mds/man/mmds.project.Rd bios2mds/man/mmds.2D.plot.Rd bios2mds/man/import.fasta.Rd bios2mds/man/dis.Rd bios2mds/man/export.fasta.Rd bios2mds/man/mat.dif.Rd bios2mds/man/dif.Rd bios2mds/man/sub.mat.Rd bios2mds/man/mmds.2D.multi.Rd bios2mds/man/extract.cluster.Rd bios2mds/man/bios2mds-package.Rd bios2mds/man/mmds.3D.plot.Rd bios2mds/man/mmds.Rd bios2mds/man/kmeans.run.Rd bios2mds/man/import.msf.Rd bios2mds/man/sil.score.Rd bios2mds/man/mmds.plot.Rd
bios2mds/inst
bios2mds/inst/doc
bios2mds/inst/doc/bios2mds.pdf
bios2mds/inst/csv
bios2mds/inst/csv/human_gpcr_group.csv
bios2mds/inst/csv/drome_gpcr_group.csv
bios2mds/inst/msa
bios2mds/inst/msa/human_gpcr.msf
bios2mds/inst/msa/drome_gpcr.fa
bios2mds/inst/msa/human_gpcr.fa
bios2mds/inst/msa/drome_gpcr.msf
bios2mds/NAMESPACE
bios2mds/R
bios2mds/R/mmds.2D.multi.R bios2mds/R/dis.R bios2mds/R/kmeans.run.R bios2mds/R/mat.dis.R bios2mds/R/mmds.2D.plot.R bios2mds/R/import.fasta.R bios2mds/R/is.gap.R bios2mds/R/extract.cluster.R bios2mds/R/mmds.R bios2mds/R/dif.R bios2mds/R/mmds.3D.plot.R bios2mds/R/col.group.R bios2mds/R/mmds.project.R bios2mds/R/sil.score.R bios2mds/R/random.msa.R bios2mds/R/import.msf.R bios2mds/R/mat.dif.R bios2mds/R/is.aa.R bios2mds/R/write.mmds.pdb.R bios2mds/R/scree.plot.R bios2mds/R/mmds.plot.R bios2mds/R/export.fasta.R
bios2mds/DESCRIPTION
bios2mds/ChangeLog

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.