fmcsR

Mismatch Tolerant Maximum Common Substructure Searching

Bioconductor version: Release (2.14)

The fmcsR package introduces an efficient maximum common substructure (MCS) algorithms combined with a novel matching strategy that allows for atom and/or bond mismatches in the substructures shared among two small molecules. The resulting flexible MCSs (FMCSs) are often larger than strict MCSs, resulting in the identification of more common features in their source structures, as well as a higher sensitivity in finding compounds with weak structural similarities. The fmcsR package provides several utilities to use the FMCS algorithm for pairwise compound comparisons, structure similarity searching and clustering.

Author: Yan Wang, Tyler Backman, Kevin Horan, Thomas Girke

Maintainer: ChemmineR Team <see at url>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("fmcsR")

To cite this package in a publication, start R and enter:

    citation("fmcsR")

Documentation

PDF R Script gpls Tutorial
PDF   Reference Manual
Text   README
Text   NEWS

Details

biocViews CellBasedAssays, Clustering, DataImport, Infrastructure, MicrotitrePlateAssay, Proteomics, Software, Visualization
Version 1.6.0
In Bioconductor since BioC 2.11 (R-2.15)
License Artistic-2.0
Depends R (>= 2.10.0), ChemmineR, methods
Imports RUnit, methods, ChemmineR, BiocGenerics, parallel
Suggests BiocStyle
System Requirements
URL http://manuals.bioinformatics.ucr.edu/home/chemminer
Depends On Me
Imports Me Rcpi
Suggests Me ChemmineR

Package Downloads

Package Source fmcsR_1.6.0.tar.gz
Windows Binary fmcsR_1.6.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) fmcsR_1.6.0.tgz
Mac OS X 10.9 (Mavericks)
Package Downloads Report Download Stats

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