I'm trying to get the seqlm package running for a DMR analysis I'd like to conduct, first by simply running the example provided with the package, but am already getting an error I have no idea how to deal with.

After installing the required packages (and all dependencies), followed by update.packages():

library(seqlm)
data(tissue_small)

segments = seqlm(values = tissue_small$values, genome_information = tissue_small$genome_information, annotation =  tissue_small$annotation)

I get this error:

Error: 'as.vector' is not an exported object from 'namespace:IRanges'

Could this be a problem with some updated packages but not others? I don't even know what a namespace is!

sessionInfo below. Any help would be appreciated!

---

R version 3.3.1 (2016-06-21)
Platform: x86_64-apple-darwin13.4.0 (64-bit)
Running under: OS X 10.10.5 (Yosemite)

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] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] seqlm_0.1            devtools_1.12.0      BiocInstaller_1.22.3

loaded via a namespace (and not attached):
[1] Rcpp_0.12.5          magrittr_1.5         XVector_0.12.0       GenomicRanges_1.24.2 BiocGenerics_0.18.0
[6] zlibbioc_1.18.0      IRanges_2.6.1        munsell_0.4.3        lattice_0.20-33      colorspace_1.2-6   
[11] foreach_1.4.3        stringr_1.0.0        GenomeInfoDb_1.8.1   plyr_1.8.4           tools_3.3.1        
[16] parallel_3.3.1       grid_3.3.1           gtable_0.2.0         withr_1.0.2          iterators_1.0.8    
[21] digest_0.6.9         Matrix_1.2-6         reshape2_1.4.1       ggplot2_2.1.0        S4Vectors_0.10.2   
[26] codetools_0.2-14     memoise_1.0.0        stringi_1.1.1        scales_0.4.0         stats4_3.3.1

seqlm isn't a Bioconductor package so you should contact maintainer("seqlm"). It looks like the version you are using has not been updated to work with the current version of Bioconductor.

Problem has been solved by the package maintainer and is now working.