Hi, I thik I have found a recently introduced bug in the newer version of Bioconductor and of the GenomicRanges package. I cannot turn an RleViewsList object into a GRanges object using the function as(from, "GRanges"). Specifficaly I et the following error: "Error in normalizeSingleBracketSubscript(i, x) : invalid subscript type ". The code example illustrating the problem is below: > example(GRanges) > mycov = coverage(longGR) > rle.i = slice(mycov, lower=3) > gr = as (rle.i, "GRanges") Error in normalizeSingleBracketSubscript(i, x) : invalid subscript type > traceback() 10: stop("invalid subscript type") 9: normalizeSingleBracketSubscript(i, x) 8: extractROWS(subject, from_ranges) 7: extractROWS(subject, from_ranges) 6: asMethod(object) 5: as(from, "RangedData") 4: .class1(object) 3: as(as(from, "RangedData"), "GRanges") 2: asMethod(object) 1: as(rle.i, "GRanges") All best, Giorgos -- output of sessionInfo(): R version 3.0.2 (2013-09-25) Platform: x86_64-unknown-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C [3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=en_US.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] parallel stats graphics grDevices utils datasets methods [8] base other attached packages: [1] GenomicRanges_1.14.3 XVector_0.2.0 IRanges_1.20.4 [4] BiocGenerics_0.8.0 loaded via a namespace (and not attached): [1] bitops_1.0-6 stats4_3.0.2 tools_3.0.2 zlibbioc_1.8.0 -- Sent via the guest posting facility at bioconductor.org.