ASCAT v2.5.3

ASCAT/DESCRIPTION

@@ -1,19 +1,19 @@
 Package: ASCAT
 Type: Package
 Title: Allele-Specific Copy Number Analysis of Tumours
-Version: 2.5.2
-Date: 2018-08-29
+Version: 2.5.3
+Date: 2022-02-08
 Authors@R: c(person("Peter", "Van Loo", role=c("aut","cre"), email="[email protected]"),
     person("Gro", "Nielsen", role="ctb"),
     person("Jiqiu","Cheng", role="ctb"),
     person("Stefan","Dentro", role="ctb"),
     person("Edith","Ross", role="ctb"),
-    person("Kerstin","Haase", role="ctb"))
+    person("Kerstin","Haase", role="ctb"),
+	person("Tom","Lesluyes", role="ctb"))
 Author: Peter Van Loo [aut, cre], Gro Nielsen [ctb], Jiqiu Cheng [ctb], Stefan
-    Dentro [ctb], Edith Ross [ctb], Kerstin Haase [ctb]
-Maintainer: Kerstin Haase <[email protected]>
-Description: R package of ASCAT as published in http://www.ncbi.nlm.nih.gov/
-    pubmed/20837533
+    Dentro [ctb], Edith Ross [ctb], Kerstin Haase [ctb], Tom Lesluyes [ctb]
+Maintainer: Tom Lesluyes <[email protected]>
+Description: R package of ASCAT as published in http://www.ncbi.nlm.nih.gov/pubmed/20837533
 Depends:
     R (>= 2.13.0),
     RColorBrewer,
@@ -23,4 +23,4 @@ Depends:
     utils
 License: GPL-3
 LazyLoad: yes
-RoxygenNote: 6.1.0
+RoxygenNote: 7.1.2

ASCAT/NAMESPACE

@@ -16,11 +16,3 @@ export(base.gw.plot)
 export(make_segments)
 export(runASCAT)
 import(RColorBrewer)
-
-importFrom("grDevices", "adjustcolor", "colorRampPalette", "dev.new",
-             "dev.off", "pdf", "png")
-importFrom("graphics", "abline", "axis", "image", "par", "plot",
-             "points", "rect", "text")
-importFrom("stats", "complete.cases", "cor", "lm", "mad", "median",
-             "na.omit", "runmed", "var")
-importFrom("utils", "read.table", "write.table")

README.md

@@ -2,16 +2,13 @@
 
 ## Description
 
-This repository provides the ASCAT R package that can be used to infer tumour purity, ploidy and allele-specific copy number profiles.
+This repository provides the ASCAT R package (v2.5.3) that can be used to infer tumour purity, ploidy and allele-specific copy number profiles.
 
 ASCAT is described in detail in: [Allele-specific copy number analysis of tumors. Van Loo P *et al*. *PNAS* (2010)](http://www.ncbi.nlm.nih.gov/pubmed/20837533).
 
 This repository also contains the code underlying additional publication:
 [Allele-specific multi-sample copy number segmentation. Ross EM, Haase K, Van Loo P & Markowetz F. *Bioinformatics* (2020)](https://pubmed.ncbi.nlm.nih.gov/32449758).
 
-## Installation
-`devtools::install_github('VanLoo-lab/ascat/ASCAT')`
-
 ### Testing
 We provide some scripts and input data in the *ExampleData* folder.