Bioconductor submission

gevaertlab · Feb 11, 2019 · 96e9c65 · 96e9c65
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Showing 6 changed files with 5 additions and 7 deletions.
diff --git a/.Rbuildignore b/.Rbuildignore
@@ -1,5 +1,6 @@
-^TCGA_MethylStates$
 ^RUNNING_AMARETTO_EXAMPLE$
+^data/MethylStates_TCGA\.rda$
+^TCGA_MethylStates$
 ^LICENSE\.md$
 ^AMARETTO\.Rproj$
 ^\.Rproj\.user$
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,7 +1,7 @@
 Package: AMARETTO
 Type: Package
 Title: Regulatory network inference and driver gene evaluation using integrative multi-omics analysis and penalized regression.
-Version: 0.99.4
+Version: 0.99.5
 Date: 2016-06-06
 Author: Jayendra Shinde, Celine Everaert, Shaimaa Bakr, Mohsen Nabian
 	Nathalie Pochet and Olivier Gevaert

diff --git a/NEWS.md b/NEWS.md
@@ -1,3 +1,3 @@
-# AMARETTO 0.99.4
+# AMARETTO 0.99.5
 
 * This marks the first release to BioConductor of AMARETTO. We have included one vignettes which uses a TCGA liver cancer example to show the functionality of AMARETTO.
diff --git a/RUNNING_AMARETTO_EXAMPLE/AMARETTO.R b/RUNNING_AMARETTO_EXAMPLE/AMARETTO.R
@@ -30,7 +30,7 @@ setwd(resdir)
 #-----------------------------------------------------------------------------------------
 #ProcessedData <- AMARETTO_Preprocess(CancerSite,DataSetDirectories)
 
-#load(TCGA_MethylStates/MethylStates.rda) #MethylMix preprocessed data for CancerSite
+#load(data/MethylStates_TCGA.rda) #MethylMix preprocessed data for CancerSite
 #met <- MethylStates[CancerSite] #MethylMix preprocessed data for CancerSite
 
 #-#-#-#-#-#-#-#-#-#-#-#-#-#-#-#-#-#-#-#-#-#-#-#-#-#

diff --git a/TCGA_MethylStates/MethylStates.rda → data/MethylStates_TCGA.rda b/TCGA_MethylStates/MethylStates.rda → data/MethylStates_TCGA.rda
diff --git a/src/.gitignore b/src/.gitignore