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High-quality reads were selected using Newbler sequence filtering at default settings.
In such cases, downstream sequence filtering prior to data analysis becomes extremely important.
The search was run without sequence filtering at an e value threshold of 10−.
First, we formatted all three datasets as BLAST databases, using the dustmasker sequence filtering application for the two Cardamine datasets.
To validate our sequence filtering and SNP detection constraints we plotted the distribution of the SNPs over the 62 positions in the sequence reads.
Basically, this consists in the removal of nonhomologous extensions beyond the mature polypeptide, which would generate noise in subsequent sequence filtering.
Similar(32)
The inputs are realized as white noise sequence filtered through an M-tap multivariate FIR filter.
For indexed sequencing libraries [ 9, 10], such clusters are efficiently removed by an index sequence filter step.
The improvement is significant when the query sequence length is larger than 400 due to large number of database sequence filtered out.
RNA-Sequencing, filtering of quality reads and mapping of reads onto the cDNA clusters were described [ 13].
After removing adaptor sequences, filtering out low quality tags and cleaning up sequences derived from adaptor-adaptor ligation, 2,149,116 unique sequences were obtained.
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