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2.5.13: updated NEWS for BioC 3.5 release

git-svn-id: file:///home/git/hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/OncoSimulR@128263 bc3139a8-67e5-0310-9ffc-ced21a209358

Ramon Diaz-Uriarte authored on 07/04/2017 08:19:25
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 Package: OncoSimulR
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 Type: Package
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 Title: Forward Genetic Simulation of Cancer Progression with Epistasis 
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-Version: 2.5.12
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-Date: 2017-02-08
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+Version: 2.5.13
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+Date: 2017-04-07
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 Authors@R: c(person("Ramon", "Diaz-Uriarte", role = c("aut", "cre"),
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 		     email = "rdiaz02@gmail.com"),
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 	      person("Mark", "Taylor", role = "ctb", email = "ningkiling@gmail.com"))
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+Changes in version 2.6.0 (for BioC 3.5):
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+	- Many additions to the vignette and documentation.
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+	- LOD and POM (lines of descent, path of maximum, sensu Szendro et
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+	  al.).
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+        - Diversity of sampled genotypes.
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+	- Genotyping error can be added in samplePop.
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+	- rfitness: shifting by subtraction and mu of normal distribution.
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+	- simOGraph: using proper transitive reduction.
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+	- Citation shows Bioinformatics paper.
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+	- Handling of trivial cases in genotFitness.
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+	- Clarified McFarland parameterization.
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+	- Better (and better explained) estimates of simulation error for McFL.	
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+	- AND of detectedSizeP and lastMaxDr.
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+	- fixation of a genotype/gene as stopping mechanism.
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+	- sampledGenotypes in user code.
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+	- clonePhylog et al: deal with never any descendant.
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+	- samplePop can handle failed simulations graciously.
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+	- accessible genotypes now done in C++.
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+	- simOGraph can also output rT data frames.
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+	- clonePhylog et al: deal with never any descendant.
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+	- samplePop can handle failed simulations graciously.
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+	- summary.oncosimulpop can handle failed simulations graciously.
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+
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+Changes in version 2.5.13 (2017-04-07):
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+	- Updated NEWS for BioC 3.5.
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+
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 Changes in version 2.5.12 (2017-02-18):
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 	- rfitness: allow simple forcing of wt to 1, shifting by
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 	  subtraction, and specifying mu of normal distribution.
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 \usepackage[%
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-		shash={57619a7},
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-		lhash={57619a790a2604690e0cd2e73fbcd67d1e4d9fbf},
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-		authname={Ramon Diaz-Uriarte (at Lacerta)},
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+		shash={e91dd33},
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+		lhash={e91dd330908da89bee6171f0b856e34171e689d2},
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+		authname={ramon diaz-uriarte (at Phelsuma)},
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 		authemail={rdiaz02@gmail.com},
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-		authsdate={2017-02-09},
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-		authidate={2017-02-09 19:35:58 +0100},
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-		authudate={1486665358},
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-		commname={Ramon Diaz-Uriarte (at Lacerta)},
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+		authsdate={2017-02-18},
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+		authidate={2017-02-18 21:20:59 +0100},
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+		authudate={1487449259},
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+		commname={ramon diaz-uriarte (at Phelsuma)},
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 		commemail={rdiaz02@gmail.com},
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-		commsdate={2017-02-09},
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-		commidate={2017-02-09 19:35:58 +0100},
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-		commudate={1486665358},
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-		refnames={ (HEAD, origin/master, origin/HEAD)}
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+		commsdate={2017-02-18},
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+		commidate={2017-02-18 21:20:59 +0100},
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+		commudate={1487449259},
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+		refnames={ (HEAD -> master, tag: 2.5.12, origin/master, origin/HEAD, oncosimul-ana/ana-intervention, ana-intervention)}
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 	]{gitsetinfo}
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