Hi all,
Could you give me some suggestions for tools that simulate paired-end read data, for each read, the tool will also output the coordinate of genome, where the read comes from.
Right now I use wgsim, but it does not output the coordinate information.
The name of the read in WGSIM contains the information of where the read originates as well as whether it was mutated or not.
For instance, read gi|157697771|ref|NW_001838433.1|_8301_9008_0:0:0_0:0:0_5cd7, which I simulate from huref chr17.
I known it come from contig gi|157697771|ref|NW_001838433.1, does it mean that 8301 and 9008 are contig coordinate and 0:0:0 talks about mutation, and 5cd7 is read id?
I did not find any document talking about this so I am just not sure.
Thanks
It is not quite documented but your guess should be close, map the read and also compare the site at a known mutation and you'll get the information from that.
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Istvan Albert
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