Hello,
I have 1.3 million paired-end 454 reads for a bacterial genome with an expected size of 4.5 MB.
When I tried de novo assembly using the default Newbler parameters it estimated a genome size of 197 MB!! I got over 2000 contigs with an N50 of 2216 bases
Is there an input parameter for expected genome size? Or are there any other parameters that I should modify to get a better output?
Thanks,
Swapna
I have 1.3 million paired-end 454 reads for a bacterial genome with an expected size of 4.5 MB.
When I tried de novo assembly using the default Newbler parameters it estimated a genome size of 197 MB!! I got over 2000 contigs with an N50 of 2216 bases
Is there an input parameter for expected genome size? Or are there any other parameters that I should modify to get a better output?
Thanks,
Swapna
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