Hello Michael and everyone, Would you please consider adding to import() the capacity to generate a GRanges object rather than the default RangedData object?
Also, Wouldn't it be great to be able to import() with filters just like with readAligned()? Justification GRanges is a biology-aware container. When importing large BEDs into R, the current workflow involves creating RangedData first and then converting to GRanges. If the BEDs are really big, holding both objects in memory at any point in time is a hardware challenge. The capacity to filter the input would help in this case and in general it would provide an increase in efficiency. Thank you, Ivan Ivan Gregoretti, PhD National Institute of Diabetes and Digestive and Kidney Diseases National Institutes of Health 5 Memorial Dr, Building 5, Room 205. Bethesda, MD 20892. USA. Phone: 1-301-496-1016 and 1-301-496-1592 Fax: 1-301-496-9878 _______________________________________________ Bioc-sig-sequencing mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing
