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. This is the current list of deprecated packages for Bioc
3.19.
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
Do not un-deprecate a package yourself. You must request un-deprecation from
the Bioconductor core team at bioc-devel@r-project.org.
Software:
User Requested
* CancerInSilico
* cellHTS2
* CNVgears
* compartmap
* ensemblVEP
* HumanTranscriptomeCompendium
* maigesPack
* MMAPPR2
* openPrimeRui
* pwOmics
* restfulSE
Unresponsive:
* beadarraySNP
* BDMMAcorrect
* BHC
* biodbLipidmaps
* BioNetStat
* CancerSubtypes
* cliqueMS
* clusterSeq
* contiBAIT
* CoRegNet
* CORREP
* crisprseekplus
* DNABarcodes
* dpeak
* eegc
* enrichTF
* exomePeak2
* farms
* FCBF
* flowMap
* FoldGO
* FScanR
* FunChIP
* GOSim
* ImmuneSpaceR
* InterMineR
* IntOMICS
* IRISFGM
* iterClust
* MetaVolcanoR
* miRmine
* MobilityTransformR
* multiOmicsViz
* MutationPatterns
* NeighborNet
* NetPathMiner
* oneSENSE
* pathVar
* pcxn
* PERFect
* phemd
* PloGO2
* proteasy
* PSEA
* RefPlus
* ReQON
* riboSeqR
* RIPAT
* RLSeq
* segmentSeq
* SeqSQC
* SimBindProfiles
* singleCellTK
* SMAP
* sparseDOSSA
* SpidermiR
* SQUADD
* StarBioTrek
* STROMA4
* TNBC.CMS
* TnT
ExperimentData:
User Requested
* MMAPPR2data
* restfulSEData
Unresponsive
* pcxnData
* RLHub
Lori Shepherd - Kern
Bioconductor Core Team
Roswell Park Comprehensive Cancer Center
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Buffalo, New York 14263
________________________________
From: Kern, Lori
Sent: Thursday, February 29, 2024 2:40 PM
To: bioc-devel@r-project.org <bioc-devel@r-project.org>
Subject: List of Deprecated Packages for Bioc3.19
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. This is the current list of deprecated packages for Bioc
3.19.
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
Do not un-deprecate a package yourself. You must request un-deprecation from
the Bioconductor core team at bioc-devel@r-project.org.
Software:
User Requested
* CancerInSilico
* cellHTS2
* CNVgears
* compartmap
* ensemblVEP
* maigesPack
* MMAPPR2
* openPrimeRui
Unresponsive:
* beadarraySNP
* BDMMAcorrect
* BHC
* CancerSubtypes
* clusterSeq
* CNVPanelizer
* contiBAIT
* CoRegNet
* CORREP
* crisprseekplus
* DNABarcodes
* dpeak
* eegc
* enrichTF
* exomePeak2
* farms
* FCBF
* flowMap
* FoldGO
* FScanR
* gscreend
* ImmuneSpaceR
* InterMineR
* IRISFGM
* MetaVolcanoR
* miRmine
* MobilityTransformR
* multiOmicsViz
* MutationPatterns
* NeighborNet
* NetPathMiner
* NeuCA
* oneSENSE
* pathVar
* pcxn
* PERFect
* PloGO2
* proteasy
* RefPlus
* ReQON
* riboSeqR
* RIPAT
* segmentSeq
* SeqSQC
* SimBindProfiles
* singleCellTK
* SMAP
* sparseDOSSA
* SpidermiR
* SQUADD
* StarBioTrek
* STROMA4
* TNBC.CMS
* TnT
ExperimentData:
User Requested
* MMAPPR2data
Unresponsive
* pcxnData
Lori Shepherd - Kern
Bioconductor Core Team
Roswell Park Comprehensive Cancer Center
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Buffalo, New York 14263
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