-
Notifications
You must be signed in to change notification settings - Fork 11
/
Copy pathDESCRIPTION
115 lines (115 loc) · 2.33 KB
/
DESCRIPTION
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
Package: RnBeads
Title: RnBeads
Description: RnBeads facilitates comprehensive analysis of various types of DNA
methylation data at the genome scale.
Authors@R: c(
person("Yassen", "Assenov", email = "[email protected]",
role = c("aut")),
person("Pavlo", "Lutsik", email = "[email protected]",
role = c("aut")),
person("Fabian", "Mueller", email = "[email protected]",
role = c("aut", "cre")))
Date: 2015-12-30
Version: 1.3.4
Suggests:
Category,
GEOquery,
GOstats,
Gviz,
IlluminaHumanMethylation450kmanifest,
RPMM,
RefFreeEWAS,
RnBeads.hg19,
XML,
annotate,
biomaRt,
foreach,
doParallel,
ggbio,
isva,
mclust,
mgcv,
minfi,
nlme,
org.Hs.eg.db,
org.Mm.eg.db,
org.Rn.eg.db,
quadprog,
rtracklayer,
sva,
wateRmelon,
wordcloud,
argparse
Depends:
R (>= 3.0.0),
BiocGenerics,
GenomicRanges,
MASS,
RColorBrewer,
cluster,
ff,
fields,
ggplot2 (>= 0.9.2),
gplots,
gridExtra,
limma,
matrixStats,
methods,
illuminaio,
methylumi,
plyr
Imports:
IRanges
License: GPL-3
biocViews: DNAMethylation, MethylationArray, MethylSeq, Epigenetics,
QualityControl, Preprocessing, BatchEffect, DifferentialMethylation,
Sequencing, CpGIsland, TwoChannel, DataImport
Collate:
'CNV.R'
'Report-class.R'
'Report-methods.R'
'ReportPlot-class.R'
'ReportPlot-methods.R'
'RnBDiffMeth-class.R'
'bigFf.R'
'RnBSet-class.R'
'RnBeadSet-class.R'
'RnBeadRawSet-class.R'
'RnBeads-package.R'
'RnBiseqSet-class.R'
'annotations.R'
'batch.R'
'batch.quality.R'
'bmiq.R'
'cellTypeAdjustment.R'
'clusterArchitecture.R'
'clusterArchitectureSGE.R'
'clustering.R'
'computeCluster.R'
'controlPlots.R'
'controlPlotsBiSeq.R'
'dataExport.R'
'dataImport.R'
'differentialMethylation.R'
'enrichment.R'
'filtering.R'
'filteringSummary.R'
'gender.R'
'greedycut.R'
'loading.R'
'logger.R'
'main.R'
'normalization.R'
'options.R'
'parallelProcessing.R'
'plottingUtils.R'
'profiles.R'
'qualityControl.R'
'readGEO.R'
'regionDescription.R'
'regionProfiles.R'
'subSegments.R'
'sva.R'
'utilities.R'
'wbcInference.R'
RoxygenNote: 5.0.1