1.0.5

ATpoint · Aug 26, 2024 · 313f770 · 313f770
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diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,7 +1,7 @@
 Package: SigGenes
 Title: Automated differential analysis and signature generation for bulk and single-cell data
 Description: Automated differential analysis between groups based on limma-voom and generation of per-group signatures via custom filtering.
-Version: 1.0.4
+Version: 1.0.5
 Author: Alexander Bender [aut,cre]
 Maintainer: Alexander Bender <[email protected]>
 License: LGPL (>=2)

diff --git a/NAMESPACE b/NAMESPACE
@@ -13,10 +13,14 @@ importFrom(SummarizedExperiment,assayNames)
 importFrom(SummarizedExperiment,colData)
 importFrom(edgeR,DGEList)
 importFrom(edgeR,calcNormFactors)
+importFrom(edgeR,cpm)
 importFrom(edgeR,filterByExpr)
 importFrom(edgeR,voomLmFit)
+importFrom(limma,arrayWeights)
 importFrom(limma,contrasts.fit)
+importFrom(limma,duplicateCorrelation)
 importFrom(limma,is.fullrank)
+importFrom(limma,lmFit)
 importFrom(limma,makeContrasts)
 importFrom(limma,topTreat)
 importFrom(limma,treat)

diff --git a/NEWS b/NEWS
@@ -1,3 +1,9 @@
+CHANGES IN VERSION 1.0.5
+------------------------
+
+    o option to use limma-trend for testing rather than default limma-voom
+
+
 CHANGES IN VERSION 1.0.4
 ------------------------