I get a memory error ('error: cannot allocate vector of size 344.5 Mb') when running summarizeOverlaps in the Genomic alignments package. I have 4 GB RAM (with about 3.8 GB free space) and I use 64 bits R. I also increased the memory.limit size to 3500 and I tried -- vanilla as well. Nothing seems to work. Do you have any ideas? Thanks a lot!