Hi,
On 02/18/2016 03:00 AM, Dario Strbenac wrote:
Good day,
Thank you for these two suggestions. I have questions about both options.
GPos seems to have a limit on the number of bases it can represent. I get an
error: Error in GPos(samplingAreas) : too many genomic positions in 'pos_runs'.
Good day,
Thank you for these two suggestions. I have questions about both options.
GPos seems to have a limit on the number of bases it can represent. I get an
error: Error in GPos(samplingAreas) : too many genomic positions in 'pos_runs'.
What exactly is this limit ? Could it be added to the
Hi Dario,
On 02/16/2016 03:00 AM, Dario Strbenac wrote:
Hello,
There is no convenience function to sample nucleotide positions from a GRanges
object. My approach is to generate a GRanges of every chromosomal position with
a width of 1, then find the overlaps with the desired ranges
Hi Dario,
You could use a package called regioneR for that. It has functions to
create random regions and to randomize existing sets of regions along
the genome and it can do it taking into account a possible set of masked
regions.
In your case, you could create a mask for the genome that
Hello,
There is no convenience function to sample nucleotide positions from a GRanges
object. My approach is to generate a GRanges of every chromosomal position with
a width of 1, then find the overlaps with the desired ranges (admissible
regions), then sample the positions that overlapped.
