Comments (4)
Could be -- help welcome! Could you cook up and run available.packages()
and compare?
"By design" we run against CRAN and pull in BioC as needed. That leaves the door open for something from BioConductor to be stale. We do bulk update to new BioC releases, in between ... may need an additional call we need to fill in. Help from experienced BioC users appreciated!
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I think I have a handle on it. It is simply not an update run I have done, but should do. Maybe weekend-ish. Current subset among those already built:
> ap[newpkgs,.(Package, Version),on="pkgver"]
Package Version
<char> <char>
1: affy 1.78.2
2: AnnotationForge 1.42.2
3: apeglm 1.22.1
4: CelliD 1.8.1
5: cliqueMS 1.14.1
6: clusterProfiler 4.8.3
7: DelayedArray 0.26.7
8: DelayedMatrixStats 1.22.6
9: DiffBind 3.10.1
10: DOSE 3.26.1
11: gdsfmt 1.36.1
12: genefilter 1.82.1
13: GeneticsPed 1.62.1
14: GenomeInfoDb 1.36.2
15: GenomicFeatures 1.52.2
16: ggtree 3.8.2
17: GreyListChIP 1.32.1
18: Gviz 1.44.1
19: HDF5Array 1.28.1
20: HIBAG 1.36.2
21: HiCcompare 1.22.1
22: InteractionSet 1.28.1
23: lefser 1.10.1
24: lfa 2.0.11
25: MatrixGenerics 1.12.3
26: multiHiCcompare 1.18.1
27: mzR 2.34.1
28: qpgraph 2.34.2
29: RaggedExperiment 1.24.2
30: RCy3 2.20.1
31: RedeR 2.4.3
32: rhdf5filters 1.12.1
33: rtracklayer 1.60.1
34: S4Arrays 1.0.6
35: safe 3.40.1
36: ScaledMatrix 1.8.1
37: scater 1.28.0
38: scran 1.28.2
39: scuttle 1.10.2
40: SeqArray 1.40.1
41: sparseMatrixStats 1.12.2
42: STRINGdb 2.12.1
43: systemPipeR 2.6.3
44: trackViewer 1.36.2
45: treeio 1.24.3
46: tweeDEseq 1.46.2
47: universalmotif 1.18.1
Package Version
>
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Done for jammy, will do focal next.
Thanks for the heads-up, this was an oversight and is something that clearly improves the overall experience!
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Now also taken care of for focal. Thanks again.
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