Stats from SOAPdenovo output files

[JolienC]

Hi,

I'm very new at all this and I thought this was a good way of finding some anwers

I'm comparing tools for NGS data and I'm working with SOAPdenovo right now.
I got the output files, but I have no idea how I can find or calculate the statistics of the assembly (such as number of contigs, N50, genome coverage, etc.)
Does anybody know if there is a script for finding those stats, or just where I would be able to find these?

Thank you very much in advance!
Jolien

[delphi_ote]

I'm also new, but I believe the N50 computation is done by SOAPdenovo automatically output to stdout.

[tonybolger]

I got the output files, but I have no idea how I can find or calculate the statistics of the assembly (such as number of contigs, N50, genome coverage, etc.)
Does anybody know if there is a script for finding those stats, or just where I would be able to find these?

There's a reasonably decent tool, statsContigAll, available as part of Curtain. It gives min/max/N90-N10, total size etc.