Sentence examples for synthetic read from inspiring English sources
We use the maq (maq.sourceforge.net) simulation tool to generate multiple synthetic read sets from the human genome, of the same size as our natural data set, using the assumptions underlying <img src="http://journals.plos.org/plosone/article/asset?id=info?doi/10.1371/journal.pone.0012681.e122.PNG" class= inline-graphic"/>.
Aligning the synthetic read set to gene models identifies a total of 28 (0.0001%) aligned reads.
Alignment with the synthetic read set demonstrates that observed alignments are highly specific and miss-alignments are not expected.
Then the consistency of the output synthetic read was checked by aligning the initial Illumina reads set.
Next, we checked the consistency of the output synthetic read by aligning the initial Illumina reads set, using BLAT with the following parameters : tileSize = 12.
We invalidated the synthetic read, if we observed a gap in coverage (coverage less than the MIN_COV2 parameter, 10 × was used).
Our software can be used to generate collections of synthetic reads that reflect the diverse taxonomical composition of typical metagenome data sets.
(PDF 52 kb) Additional file 4: Synthetic reads.
(XLS 1406 kb) Additional file 5: Assignment of synthetic reads.
The coverage of these synthetic reads was 30× for C.elegans.
Synthetic reads for 86-028NP were included as a control.
