Packaged: 2013-09-11 12:36:09 UTC; gavinthomas

Author: Klaas Hartmann, Gavin Thomas, Arne Mooers, Jeffrey Joy, Aki
Description: A pre-processor for mrBayes that assimilates sequences,
taxonomic information and tree constraints as per xxx.  The
main functions of interest for most users will be
pastis_simple, pastis_main and conch. The main analysis is
conducted with pastis_simple or pastis_main followed by a
manual execution of mrBayes (>3.2). The placement of taxa not
contained in the tree constraint can be investigated using
Packaged: 2013-05-28 08:24:18 UTC; gavinthomas

Title: Visualizing Temporal Microbiome Data
Author: Hannigan GD, Loesche MA, Hodkinson BP, Mehta S, Grice EA
Maintainer: Geoffrey D Hannigan <ghanni@upenn.edu>
Imports: reshape2, ggplot2, grid, gridExtra, plyr, RColorBrewer
Description: An R package to quickly and easily visualize longitudinal microbiome profiles using standard output from the QIIME microbiome analysis toolkit.

Description: Quickly and easily visualize longitudinal microbiome profiles using standard output from the QIIME microbiome analysis toolkit (see <http://qiime.org> for more information).

Title: Package to Patch '.dvi' or '.synctex' Files
Description: Functions to patch specials in '.dvi' files,
or entries in '.synctex' files.  Works with concordance=TRUE
in Sweave or knitr to link sources to previews.
SystemRequirements: The 'Japanese.Rnw' vignette requires uplatex and

Description: Functions to patch specials in .dvi files;
works with "concordance=TRUE" in Sweave 2.5.0+

Title: Package to Patch .dvi or .synctex Files
Description: Functions to patch specials in .dvi files,
or entries in .synctex files.  Works with "concordance=TRUE"

Description: Functions to patch specials in .dvi files; works with

Description: Functions to generate scatterplots with images patches
instead of usual glyphs, with associated utilities.

Title: Communication between Editor and Viewer for Literate Programs
Description: This utility eases the debugging of literate documents
(noweb files) by patching the synchronization information
(the .synctex(.gz) file) produced by pdflatex with
concordance information produced by Sweave or knitr and
Sweave or knitr ; this allows for bilateral communication
between a text editor (visualizing the noweb source) and
a viewer (visualizing the resultant PDF), thus bypassing