Hi everybody, What is the minimal container class for position-and-orientation of Solexa reads?
For example, the minimal positional information should be something like a BED record, like this chr1\t3000001\t3000036\t\t\t+\t ...(and many more lines)... sorry for the cumbersome string but I just want to stress that the minimal information is: column 1: chromosome column 2: start column 3: end column 6: orientation, either 'plus', 'minus' or undefined. (in this case a '+') Is there any compact container to load, say, 50 million records? I thought that RangedData could do that but after reading the documentation I see that it does not hold strand information. If there is such container, how do you load it up from a BED file? 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: 1-301-496-1592 Fax: 1-301-496-9878 _______________________________________________ Bioc-sig-sequencing mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/bioc-sig-sequencing
