Exact(1)
Split reading frames were manually annotated into single insertions.
Similar(59)
The score increase is greater for evenly split reads than for reads with uneven piece sizes.
To combine the scores for the individual read pieces, they are multiplied, giving a strong bias to evenly split reads.
The mapping produced a SAM formatted file containing mapping coordinates, mapping quality, and information on split reads.
The WTP of this mapping pipeline does not produce de novo split reads that span possible introns.
It requires gene structure definitions in the form of a GTF formatted file to find possible split reads.
Finally, we used split reads as additional line of evidence.
In 18/20 cases these split reads included L1 sequence.
Most NGS aligners will not map split reads.
We selected the regions at which rearranged reads (split reads) consisted of at least 70% of total reads mapped on boundary regions (sum of canonical and split reads).
Therefore, split read realignment without using BWT is necessary to allow reads to be globally mapped.
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