and intensities or spectral counts derived from shotgun

quantified peptides. protiq can be used for absolute and relative protein
quantification. Input peptide abundance scores can come from various
sources, including SRM transition areas and intensities or spectral counts
derived from shotgun experiments. The package is still being extended to
also include the model for protein identification, MIPGEM, presented in
Gerster, S., Qeli, E., Ahrens, C.H. and Buehlmann, P. (2010). Protein and
gene model inference based on statistical modeling in k-partite graphs.
Proceedings of the National Academy of Sciences 107(27):12101-12106.

Description: An object oriented system using prototype or object-based
(rather than class-based) object oriented ideas.
Packaged: Wed Jan 26 10:26:12 2005; Kates

Packaged: Mon Feb  7 19:37:15 2005; Kates

Packaged: Sat Feb 19 05:24:36 2005; Kates

Description: An object oriented system using object-based, also called
prototype-based, rather than class-based object oriented ideas.

Packaged: Wed Apr 27 09:06:17 2005; Kates

Description: An object oriented system using object-based, also
called prototype-based, rather than class-based object
Packaged: Wed Jun 21 09:27:50 2006; Kates

Packaged: Wed Jan  3 17:52:42 2007; Kates

Packaged: Sat Sep 15 12:04:27 2007; Louis

called prototype-based, rather than class-based object oriented ideas.
person("Hadley", "Wickham", , "hadley@rstudio.com", "cre"),
person("Gabor", "Grothendieck", , "ggrothendieck@gmail.com", "aut"),
person("Thomas", "Petzoldt", role = "aut")

Author: Jacob Bien and Robert Tibshirani
Title: Interpretable classification with prototypes
Description: Greedy algorithm described in Bien and Tibshirani (2011)
Prototype Selection for Interpretable Classification. Annals of

Title: Hierarchical clustering with prototypes
Description: Performs minimax linkage hierarchical clustering.  Every
cluster has an associated prototype element that represents
that cluster as described in Bien, J., and Tibshirani, R.
(2011), "Hierarchical Clustering with Prototypes via Minimax
Linkage," accepted for publication in The Journal of the