humarray: Simplify Analysis and Annotation of Human Microarray Datasets

Utilises GRanges, data.frame or IRanges objects. Integrates gene annotation for ImmunoChip (or your custom chip) with function calls. Intuitive wrappers for annotation lookup (gene lists, exon ranges, etc) and conversion (e.g, between build 36 and 37 coordinates). Conversion between ensembl and HGNC gene ids, chip ids to rs-ids for SNP-arrays. Retrieval of chromosome and position for gene, band or SNP-ids, or reverse lookup. Simulation functions for ranges objects.

Version: 1.2
Depends: R (≥ 3.2), NCmisc (≥ 1.1.4), IRanges (≥ 1.22.10), GenomicRanges (≥ 1.16.4)
Imports: utils, stats, graphics, S4Vectors, Rcpp, methods, parallel, BiocGenerics, GenomicFeatures (≥ 1.22.10), GenomeInfoDb, rtracklayer, biomaRt, BiocInstaller (≥ 1.20.1), reader (≥ 1.0.1), genoset (≥ 1.16.2)
Published: 2017-11-20
Author: Nicholas Cooper
Maintainer: Nicholas Cooper <njcooper at gmx.co.uk>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
NeedsCompilation: no
CRAN checks: humarray results

Downloads:

Reference manual: humarray.pdf
Package source: humarray_1.2.tar.gz
Windows binaries: r-devel: humarray_1.2.zip, r-release: humarray_1.2.zip, r-oldrel: humarray_1.2.zip
OS X El Capitan binaries: r-release: not available
OS X Mavericks binaries: r-oldrel: humarray_1.2.tgz
Old sources: humarray archive

Linking:

Please use the canonical form https://CRAN.R-project.org/package=humarray to link to this page.