Read Types

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Generate bar plots showing the numbers or percentages of reads with different types of alignments. "Types" of alignments can include "none", "multiple", "single", "paired", "exonic", "intronic", etc.

The options for read_types are as follows:

read_types Options
Set The project you would like to analyze.
Normalize Whether the bars in the bar plots should be normalized to 100% ("Yes") or shown as numbers of reads ("No") (not an option when readclass=positional).
Read Class Choosing "All" for read class tabulates the fate of all reads: non-matching, multiply matching, single-end unique matching or paired-end unique matching.

Choosing "matching" shows the genomic features hit by just the aligning reads: exons, introns, both, splice junctions or intergenic. Choosing "positional" generates a "canonical distribution" plot, showing the positional distribution of reads flanking canonical genomic landmarks.

width Width of the image in pixels
height Height of the image in pixels