Hi,
I downloaded and installed the package "Homo.sapiens" but when I load it, I see that it's based on hg19. Is there a version based on the more recent hg38?
thanks!
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My command and sessionInfo:
library(Homo.sapiens) Loading required package: AnnotationDbi Loading required package: stats4 Loading required package: BiocGenerics Loading required package: parallel
Attaching package: ‘BiocGenerics’
The following objects are masked from ‘package:parallel’:
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ, clusterExport, clusterMap, parApply,
parCapply, parLapply, parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from ‘package:stats’:
IQR, mad, xtabs
The following objects are masked from ‘package:base’:
anyDuplicated, append, as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq, Filter,
Find, get, grep, grepl, intersect, is.unsorted, lapply, lengths, Map, mapply, match, mget, order,
paste, pmax, pmax.int, pmin, pmin.int, Position, rank, rbind, Reduce, rownames, sapply, setdiff,
sort, table, tapply, union, unique, unsplit
Loading required package: Biobase Welcome to Bioconductor
Vignettes contain introductory material; view with 'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: IRanges Loading required package: S4Vectors
Attaching package: ‘S4Vectors’
The following objects are masked from ‘package:base’:
colMeans, colSums, expand.grid, rowMeans, rowSums
Loading required package: OrganismDbi Loading required package: GenomicFeatures Loading required package: GenomeInfoDb Loading required package: GenomicRanges Loading required package: GO.db
Loading required package: org.Hs.eg.db
Loading required package: TxDb.Hsapiens.UCSC.hg19.knownGene
sessionInfo() R version 3.3.1 (2016-06-21) Platform: x86_64-apple-darwin13.4.0 (64-bit) Running under: OS X 10.11.4 (El Capitan)
locale: [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages: [1] parallel stats4 stats graphics grDevices utils datasets methods base
other attached packages:
[1] Homo.sapiens_1.3.1 TxDb.Hsapiens.UCSC.hg19.knownGene_3.2.2
[3] org.Hs.eg.db_3.3.0 GO.db_3.3.0
[5] OrganismDbi_1.14.1 GenomicFeatures_1.24.5
[7] GenomicRanges_1.24.2 GenomeInfoDb_1.8.3
[9] AnnotationDbi_1.34.4 IRanges_2.6.1
[11] S4Vectors_0.10.2 Biobase_2.32.0
[13] BiocGenerics_0.18.0 BiocInstaller_1.22.3
loaded via a namespace (and not attached):
[1] graph_1.50.0 XVector_0.12.1 zlibbioc_1.18.0 GenomicAlignments_1.8.4
[5] BiocParallel_1.6.3 tools_3.3.1 SummarizedExperiment_1.2.3 DBI_0.4-1
[9] RBGL_1.48.1 rtracklayer_1.32.2 bitops_1.0-6 RCurl_1.95-4.8
[13] biomaRt_2.28.0 RSQLite_1.0.0 Biostrings_2.40.2 Rsamtools_1.24.0
[17] XML_3.98-1.4
