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Furthermore, the Cigar string (a human readable alignment string) presented the only resource in the SAM output from BWA-SW that could be used to calculate coverage and identity values of the alignments.
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The website http://www.bioinf.uni-leipzig.de/Publications/SUPPLEMENTS/08-014 provides extensive machine readable information, including sequence files, alignments, and genomic coordinates.
Short read alignments were converted to readable formats using SAMtools [ 43], and the number of reads aligned to annotated genes was counted using R [ 44].
Homogenous artificial introns of length 30 were used for two reasons: they assign consistent weight to each intron position during alignment and produce alignments that are easily readable for further analyses.
The resulting gene structure is presented in various human readable formats like a schematic representation, and a detailed alignment of the query and the target sequence highlighting any discrepancies.
Post-alignment, we generated a novel computational tool to make the Bismark output readable in the IGV.
A simple, readable style?
"It is immensely readable.
And it is readable.
"He became more readable.
Very readable.
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