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Hello,
I recently found this paper:
Nagarajan et al., Finishing genomes with limited resources: lessons from an ensemble of microbial genomes BMC Genomics 2010, 11:242.
doi: 10.1186/1471-2164-11-242
which suggests a way to do assembly and sequence-composition guided finishing of genomes (script can be found here: http://cbcb.umd.edu/finishing/).
Did anyone try this one? The genomes we're working on were sequenced with 454, single ends and assembled with Newbler 2.5. And just as everyone else, we too would like to decrease the number of gaps in silico...
I recently found this paper:
Nagarajan et al., Finishing genomes with limited resources: lessons from an ensemble of microbial genomes BMC Genomics 2010, 11:242.
doi: 10.1186/1471-2164-11-242
which suggests a way to do assembly and sequence-composition guided finishing of genomes (script can be found here: http://cbcb.umd.edu/finishing/).
Did anyone try this one? The genomes we're working on were sequenced with 454, single ends and assembled with Newbler 2.5. And just as everyone else, we too would like to decrease the number of gaps in silico...