[med-svn] [r-bioc-mergeomics] branch master updated (c239665 -> e06bf9a)

[Dylan Aïssi]

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bob.dybian-guest pushed a change to branch master
in repository r-bioc-mergeomics.

      from  c239665   Upload to unstable
       new  b2c5b10   Add OMICtools ref
       new  34a5e2d   Imported Upstream version 1.4.0
       new  e06bf9a   Merge tag 'upstream/1.4.0'

The 3 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                        |   4 +-
 R/cle.LS.R                         | 498 ++++++++++++++++++++-----------------
 build/vignette.rds                 | Bin 233 -> 231 bytes
 debian/changelog                   |   6 +
 debian/upstream/metadata           |   3 +
 inst/doc/Mergeomics.Rnw            |   8 +-
 inst/doc/Mergeomics.pdf            | Bin 265347 -> 265168 bytes
 inst/unitTests/test_ssea.analyze.R |   4 +-
 man/MSEA.KDA.onestep.Rd            |   8 +-
 man/Mergeomics-package.Rd          |   8 +-
 man/kda.analyze.Rd                 |   8 +-
 man/kda.analyze.exec.Rd            |  16 +-
 man/kda.analyze.simulate.Rd        |  16 +-
 man/kda.analyze.test.Rd            |  16 +-
 man/kda.configure.Rd               |   8 +-
 man/kda.finish.Rd                  |   8 +-
 man/kda.finish.estimate.Rd         |   8 +-
 man/kda.finish.save.Rd             |   8 +-
 man/kda.finish.summarize.Rd        |   8 +-
 man/kda.finish.trim.Rd             |   8 +-
 man/kda.prepare.Rd                 |  16 +-
 man/kda.prepare.overlap.Rd         |   8 +-
 man/kda.prepare.screen.Rd          |   8 +-
 man/kda.start.Rd                   |  16 +-
 man/kda.start.edges.Rd             |   8 +-
 man/kda.start.identify.Rd          |   8 +-
 man/kda.start.modules.Rd           |   8 +-
 man/kda2cytoscape.Rd               |   8 +-
 man/kda2cytoscape.colorize.Rd      |   8 +-
 man/kda2cytoscape.colormap.Rd      |   8 +-
 man/kda2cytoscape.drivers.Rd       |   8 +-
 man/kda2cytoscape.edges.Rd         |   8 +-
 man/kda2cytoscape.exec.Rd          |   8 +-
 man/kda2cytoscape.identify.Rd      |   8 +-
 man/kda2himmeli.Rd                 |   8 +-
 man/kda2himmeli.colorize.Rd        |   8 +-
 man/kda2himmeli.colormap.Rd        |   8 +-
 man/kda2himmeli.drivers.Rd         |   8 +-
 man/kda2himmeli.edges.Rd           |   8 +-
 man/kda2himmeli.exec.Rd            |   8 +-
 man/kda2himmeli.identify.Rd        |   8 +-
 man/ssea.analyze.Rd                |  25 +-
 man/ssea.analyze.observe.Rd        |  10 +-
 man/ssea.analyze.randgenes.Rd      |  51 +++-
 man/ssea.analyze.randloci.Rd       |  10 +-
 man/ssea.analyze.simulate.Rd       |  29 ++-
 man/ssea.analyze.statistic.Rd      |   8 +-
 man/ssea.control.Rd                |  10 +-
 man/ssea.finish.Rd                 |  10 +-
 man/ssea.finish.details.Rd         |  10 +-
 man/ssea.finish.fdr.Rd             |  10 +-
 man/ssea.finish.genes.Rd           |  10 +-
 man/ssea.meta.Rd                   |   8 +-
 man/ssea.prepare.Rd                |  10 +-
 man/ssea.prepare.counts.Rd         |  10 +-
 man/ssea.prepare.structure.Rd      |  10 +-
 man/ssea.start.Rd                  |   8 +-
 man/ssea.start.configure.Rd        |  10 +-
 man/ssea.start.identify.Rd         |   8 +-
 man/ssea.start.relabel.Rd          |  10 +-
 man/ssea2kda.Rd                    |   8 +-
 man/ssea2kda.analyze.Rd            |  10 +-
 man/ssea2kda.import.Rd             |  10 +-
 man/tool.aggregate.Rd              |   8 +-
 man/tool.cluster.Rd                |  10 +-
 man/tool.cluster.static.Rd         |   8 +-
 man/tool.coalesce.Rd               |  10 +-
 man/tool.coalesce.exec.Rd          |   8 +-
 man/tool.coalesce.find.Rd          |   8 +-
 man/tool.coalesce.merge.Rd         |   8 +-
 vignettes/Mergeomics.Rnw           |   8 +-
 71 files changed, 643 insertions(+), 537 deletions(-)

-- 
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