Bwa memory requirements for hg19

[colindaven]

Hello everybody,

what is the minimum amount of memory people have to get successful alignments to the human genome with bwa? We're talking <15m Illumina transcriptome reads, 36-40bp.

The server is a Ubuntu 8.04 64bit with 8GB, and bwa has already caused it to slow down so much so that it needed to be rebooted.

Any thoughts would be welcome.

[Jon_Keats]

Generally 4Gb per instance of sampe, 8Gb of Ram is not much in the sequencing world, consider running a pipeline were you run one lane at a time, I've posted one in my intro thread if you would like