Hi Mike,
This is fixed in Rsamtools 1.15.35.
The bug was related to when the mate-pairing was performed wrt meeting
the 'yieldSize' requirement. Thanks for sending the file and
reproducible example.
The file has ~115 million records:
fl -
I should also mention that when both 'yieldSize' in the BamFile and
'which' in ScanBamParam are set the 'which' gets priority. The point of
'yieldSize' is to provide a reasonable chunk for processing the file.
When 'which' is provided it's assumed that range is of reasonable chunk
size so the
Hi Val,
On 03/27/2014 09:13 AM, Valerie Obenchain wrote:
I should also mention that when both 'yieldSize' in the BamFile and
'which' in ScanBamParam are set the 'which' gets priority. The point of
'yieldSize' is to provide a reasonable chunk for processing the file.
When 'which' is provided
