[med-svn] [r-bioc-limma] branch upstream updated (74ff295 -> 0ca9553)

[Steffen Möller]

This is an automated email from the git hooks/post-receive script.

moeller pushed a change to branch upstream
in repository r-bioc-limma.

      from  74ff295   New upstream version 3.30.8+dfsg
       new  0ca9553   New upstream version 3.32.7+dfsg

The 1 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.


Summary of changes:
 DESCRIPTION                 |   6 +-
 NAMESPACE                   |   8 +--
 R/alias2Symbol.R            |  30 ++++++++
 R/barcodeplot.R             |  22 +++---
 R/classes.R                 |   8 +--
 R/diffSplice.R              |   8 ++-
 R/fitFDist.R                |  42 +++++++----
 R/geneset-camera.R          |   4 +-
 R/geneset-cameraPR.R        |  89 +++++++++++++++++++++++
 R/geneset-fry.R             |   2 +-
 R/geneset-roast.R           |   1 -
 R/kegga.R                   | 171 +++++++++++++++++++++++---------------------
 R/plotWithHighlights.R      |   5 +-
 R/plots-fit.R               |  66 ++++++++++-------
 R/read.idat.R               |  35 ++++++---
 R/toptable.R                |   4 +-
 R/wsva.R                    |  42 +++++++++++
 build/vignette.rds          | Bin 230 -> 231 bytes
 inst/NEWS.Rd                |  97 +++++++++++++++++++++++++
 inst/doc/changelog.txt      | 150 +++++++++++++++++++++++++++++++++++---
 inst/doc/intro.pdf          | Bin 43301 -> 43301 bytes
 man/08Tests.Rd              |   4 +-
 man/alias2Symbol.Rd         |  18 +++--
 man/barcodeplot.Rd          |  19 ++---
 man/camera.Rd               |  17 +++--
 man/coolmap.Rd              |   6 +-
 man/detectionPValue.Rd      |   4 +-
 man/dim.Rd                  |   7 --
 man/ebayes.Rd               |   2 +-
 man/geneSetTest.Rd          |  10 +--
 man/goana.Rd                |  28 ++++++--
 man/kooperberg.Rd           |   4 +-
 man/plotSA.Rd               |  25 ++++---
 man/plotWithHighlights.Rd   |   2 +-
 man/propTrueNull.Rd         |   3 +-
 man/propexpr.Rd             |   4 +-
 man/volcanoplot.Rd          |  20 +++---
 man/wsva.Rd                 |  40 +++++++++++
 src/init.c                  |  32 +++++++++
 tests/limma-Tests.R         |   4 ++
 tests/limma-Tests.Rout.save | 131 ++++++++++++++++++---------------
 41 files changed, 874 insertions(+), 296 deletions(-)
 create mode 100644 R/geneset-cameraPR.R
 create mode 100644 R/wsva.R
 create mode 100644 man/wsva.Rd
 create mode 100644 src/init.c

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