pairedReadStatus
{
numberWithBothMapped = 1157826;
numberWithOneUnmapped = 229595;
numberMultiplyMapped = 715851;
numberWithBothUnmapped = 11362;
3KB insert library
library
{
libraryName = "GP5JY2V01.sff";
pairDistanceAvg = 2614.3;
pairDistanceDev = 653.6;
}
library
{
libraryName = "GP5JY2V02.sff";
pairDistanceAvg = 2608.8;
pairDistanceDev = 652.2;
}
8KB insert library
library
{
libraryName = "GSMQLLJ01.sff";
[B] pairDistanceAvg = 2719.4;[/B]
pairDistanceDev = 679.8;
}
library
{
libraryName = "GSMQLLJ02.sff";
pairDistanceAvg = 2702.5;
pairDistanceDev = 675.6;
}
Can someone explain the error in calulation of the 8kb library insert size in newbler v2.3 gsAssembler .
If it is due to use of same linker or on what basis is the paired-end distance calculated.
If we give 20kb library how will the system differ it from 3kb library data.
Is there any option in command line , whereby we can specify the insert size......that I am missing??
Regards,
Ganga Jeena
{
numberWithBothMapped = 1157826;
numberWithOneUnmapped = 229595;
numberMultiplyMapped = 715851;
numberWithBothUnmapped = 11362;
3KB insert library
library
{
libraryName = "GP5JY2V01.sff";
pairDistanceAvg = 2614.3;
pairDistanceDev = 653.6;
}
library
{
libraryName = "GP5JY2V02.sff";
pairDistanceAvg = 2608.8;
pairDistanceDev = 652.2;
}
8KB insert library
library
{
libraryName = "GSMQLLJ01.sff";
[B] pairDistanceAvg = 2719.4;[/B]
pairDistanceDev = 679.8;
}
library
{
libraryName = "GSMQLLJ02.sff";
pairDistanceAvg = 2702.5;
pairDistanceDev = 675.6;
}
Can someone explain the error in calulation of the 8kb library insert size in newbler v2.3 gsAssembler .
If it is due to use of same linker or on what basis is the paired-end distance calculated.
If we give 20kb library how will the system differ it from 3kb library data.
Is there any option in command line , whereby we can specify the insert size......that I am missing??
Regards,
Ganga Jeena
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