Title: Testing for monotonic relationship between gene expression and
Description: Several testing procedures including the global likelihood
ratio test (Bartholomew, 1961), Williams (1971, 1972), Marcus
(1976), M (Hu et al. 2005) and the modified M (Lin et al. 2007)
are used to test for the monotonic trend in gene expression
with respect to doses. BH (Benjamini and Hochberg 1995) and BY
(Benjamini and Yekutilie 2004) FDR controlling procedures are
applied to adjust the raw p-values obtained from the

Description: Several testing procedures including the global likelihood ratio test
(Bartholomew, 1961), Williams (1971, 1972), Marcus (1976), M (Hu et al. 2005) and
the modified M (Lin et al. 2007) are used to test for the monotonic trend in gene
expression with respect to doses. BH (Benjamini and Hochberg 1995) and BY
(Benjamini and Yekutilie 2004) FDR controlling procedures are applied to adjust the
raw p-values obtained from the permutations.
Depends: R (>= 2.10), tcltk, xtable, Iso, affy, ff (>= 2.0.0)

(Benjamini and Yekutieli 2004) FDR controlling procedures are

(Benjamini and Yekutieli 2004) FDR controlling procedures are applied to adjust the
Imports: xtable, Biobase, affy, ff(>= 2.0.0)

Title: Order-Restricted Inference for Microarray Experiments
Author: Dan Lin, Setia Pramana, Tobias Verbeke and Ziv Shkedy
Description: The package offers framework for testing for monotonic relationship between gene expression and doses in a microarray experiment. Several testing procedures including the global likelihood-ratio test (Bartholomew, 1961), Williams (1971, 1972), Marcus (1976), M (Hu et al. 2005) and the modified M (Lin et al. 2007) are used to test for the monotonic trend in gene expression with respect to doses. BH (Benjamini and Hochberg 1995) and BY (Benjamini and Yekutieli 2004) FDR controlling procedures are applied to adjust the raw p-values obtained from the permutations.
Imports: xtable, Biobase, affy, ff(>= 2.0.0), tcltk

Description: Offers framework for testing for monotonic relationship between gene expression and doses in a microarray experiment. Several testing procedures including the global likelihood-ratio test (Bartholomew, 1961), Williams (1971, 1972), Marcus (1976), M (Hu et al. 2005) and the modified M (Lin et al. 2007) are used to test for the monotonic trend in gene expression with respect to doses. BH (Benjamini and Hochberg 1995) and BY (Benjamini and Yekutieli 2004) FDR controlling procedures are applied to adjust the raw p-values obtained from the permutations.