I have been using the fantastic rtracklayer package to download the Conservation-track for several 3'UTR regions of different species. This has worked fantastically up to now without any problem. But I'm also interested in accessing the
multiz60way table that returns the MAF files with the multiple genome alignments for the same regions. Currently rtracklayer doesn't support downloading this type of files so I was wondering if anyone knows a way (not necessarily in the Bioconductor environment) to download this track for multiple locus in an automatic way. -- output of sessionInfo(): R version 3.1.0 beta (2014-03-28 r65330) Platform: x86_64-pc-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=en_US.UTF-8 [4] LC_COLLATE=en_US.UTF-8 LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=en_US.UTF-8 LC_NAME=C LC_ADDRESS=C [10] LC_TELEPHONE=C LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] parallel stats graphics grDevices utils datasets methods base other attached packages: [1] rphast_1.5 rtracklayer_1.23.20 GenomicRanges_1.15.41 GenomeInfoDb_0.99.26 [5] IRanges_1.21.38 biomaRt_2.19.3 Biobase_2.23.6 BiocGenerics_0.9.3 [9] BiocInstaller_1.13.3 loaded via a namespace (and not attached): [1] AnnotationDbi_1.25.17 BatchJobs_1.2 BBmisc_1.5 [4] BiocParallel_0.5.18 Biostrings_2.31.20 bitops_1.0-6 [7] brew_1.0-6 BSgenome_1.31.12 codetools_0.2-8 [10] DBI_0.2-7 digest_0.6.4 fail_1.2 [13] foreach_1.4.1 GenomicAlignments_0.99.32 iterators_1.0.6 [16] plyr_1.8.1 Rcpp_0.11.1 RCurl_1.95-4.1 [19] Rsamtools_1.15.37 RSQLite_0.11.4 sendmailR_1.1-2 [22] stats4_3.1.0 stringr_0.6.2 tools_3.1.0 [25] XML_3.98-1.1 XVector_0.3.7 zlibbioc_1.9.0 -- Sent via the guest posting facility at bioconductor.org.