Bioconductor Project
Sandrine Dudoit is a Core Developer of the
Bioconductor Project, an
open-source and open-development software project for the analysis of
biomedical and genomic data.
The following are software packages authored by group members.
- affxparser: Affymetrix file parsing SDK. H. Bengtsson, J. Bullard, and
K. D. Hansen. (Bioconductor
Project)
- biomaRt: Interface to BioMart databases (e.g. Ensembl,
Wormbase, Gramene and Uniprot). S. Durinck, W. Huber, and S. Davis. (Bioconductor Project)
- cosmo: Supervised detection of conserved motifs in DNA
sequences (COnstrained Search for MOtifs). O. Bembom, F. Gallusser, and S. Dudoit. (Bioconductor Project; cosmo
Project)
- cosmoGUI: GUI for constructing constraint sets used by the cosmo package. F. Gallusser, O. Bembom, and S. Dudoit. (Bioconductor Project; cosmo Project)
- DSA: Data-adaptive estimation with cross-validation and
the D/S/A algorithm. R. Neugebauer and J. Bullard. (van der Laan group website)
- marray: Exploratory analysis for two-color spotted
microarray data (classes and
methods, diagnostic plots, normalization procedures, quality
assessment). Y. H. Yang, with contributions from A. Paquet and
S. Dudoit. (Bioconductor Project)
- multtest: Resampling-based multiple hypothesis testing. K. S. Pollard,
Y. Ge, S. Taylor, and S. Dudoit. (Bioconductor Project)
- seqLogo: Sequence logos for DNA sequence alignments. O. Bembom. (Bioconductor Project; cosmo
Project)
- sma: Statistical microarray analysis.
S. Dudoit, Y. H. Yang, and B. M. Bolstad, with contributions from
N. Thorne, I. Lonnstedt, and J. Mar. (CRAN)
Bioconductor Project
Working Papers Series.