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
- contiBAIT
- CoRegNet
- CORREP
- CoSIA
- crisprseekplus
- DNABarcodes
- dpeak
- EBSeqHMM
- eegc
- enrichTF
- exomePeak2
- farms
- FCBF
- flowMap
- FoldGO
- FScanR
- FunChIP
- GOSim
- ImmuneSpaceR
- InterMineR
- IntOMICS
- IRISFGM
- iterClust
- metagene
- MetaVolcanoR
- miRmine
- MobilityTransformR
- multiOmicsViz
- NeighborNet
- NetPathMiner
- oneSENSE
- pathVar
- pcxn
- PERFect
- phemd
- PloGO2
- proteasy
- PSEA
- RefPlus
- ReQON
- RIPAT
- RLSeq
- SimBindProfiles
- singleCellTK
- SMAP
- sparseDOSSA
- SpidermiR
- SQUADD
- StarBioTrek
- STROMA4
- TimiRGeN
- TNBC.CMS
- TnT
ExperimentData:
User Requested
- MMAPPR2data
- restfulSEData
Unresponsive
- CoSIAdata
- pcxnData
- RLHub
NetPathMiner has been fixed and will remain in Bioconductor