The Bioconductor Team is continuing to identify packages that will be
deprecated in the next release to allow for the Bioconductor community to
respond accordingly. The list will be updated monthly. This is the current list
of deprecated packages for Bioc 3.13 :
Maintainer requested deprecation:
Software:
BiocCaseStudies
HCABrowser
HCAExplorer
HCAMatrixBrowse
ChIPSeqSpike
MSEADbi
RchyOptimyx
RNAither
SAGx
yaqcaffy
Experiment Data:
ceu1kg
ceu1kgv
ceuhm3
cgdv17
dsQTL
hmyriB36
yri1kgv
Workflow:
eQTL
Unresponsive/not-maintained packages:
Software:
AffyExpress
affyQCReport
ArrayTools
bigmemoryExtras
CancerMutationAnalysis
CexoR
CrossICC
CoRegFlux
DBChIP
dexus
EasyqpcR
EDDA
eisa
ELBOW
ExpressionView
genoset
Imetagene
IntramiRExploreR
mdgsa
methyAnalysis
OutlierD
pcot2
Polyfit
POST
proFIA
RDAVIDWebService
RNAprobR
rnaSeqMap
samExploreR
seqplots
Sojourner
SSPA
Experiment Data:
facsDorit
gskb
JctSeqData
plasFIA
It should be noted, we did try to reach out to these package maintainers
multiple times and they were either unresponsive or had emails bounce. We
encourage anyone that is familiar with a package maintainer on this list to
reach out to them and notify them directly. Packages can be un-deprecated if a
maintainer fixes the package to build/check cleanly before the next release and
requests un-deprecation on the bioc-devel@r-project.org mailing list.
Previously listed as deprecated but have been undeprecated:
ExperimentData
DmelSGI
RNAinteractMAPK
sampleClassifierData
Software
APAlyzer
metagene2
sampleClassifier
Cheers,
Lori Shepherd
Bioconductor Core Team
Roswell Park Comprehensive Cancer Center
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Buffalo, New York 14263
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