Hi,
I am trying to optimise the speed of SRMA for realignment. I am wondering a few things:
1) When using the RANGE argument to break up analyses, is there any way of specifying an entire chromosome without knowing its actual length?
2) Multithreading doesn't appear to speed things up so I am wondering if it is possible/acceptable to string together multiple srma commands on the command line with the "&" symbol in order to force different ranges to work on different cores.
3) Would it be possible/faster to use info from a BCF/VCF file to only run the relaignment over specific mutations rather than for the whole genome/exome.
Best,
Gavin
I am trying to optimise the speed of SRMA for realignment. I am wondering a few things:
1) When using the RANGE argument to break up analyses, is there any way of specifying an entire chromosome without knowing its actual length?
2) Multithreading doesn't appear to speed things up so I am wondering if it is possible/acceptable to string together multiple srma commands on the command line with the "&" symbol in order to force different ranges to work on different cores.
3) Would it be possible/faster to use info from a BCF/VCF file to only run the relaignment over specific mutations rather than for the whole genome/exome.
Best,
Gavin