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CuffCompare was run with and without the genome annotation option, so that we could curate and compare the expression results for annotated genes and the novel exons [Figure 1. *Numbers and percentages of RNAseq reads aligned with the assembled reference genome.
Moreover, Genius stumbled after putting a lot of effort into its embeddable annotation option that let any site add explanations like on Genius.com.
187'014 probesets were available for analysis when the full annotation option was selected for upload of the data to oneChannelGUI (Figure 1).
Using the "Web Annotation" option, we identified 293 additional entries.
The program was run using the MIPS [ 33] annotation option for functional definitions.
The co-occurring annotations option in GeneCodis proved useful compared to the single annotation option in some cases.
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Previously released in private beta, the software had been updated with support for more devices, an improved user interface, and more multimedia sharing and annotation options.
MAC was performed on each sample with the following annotation options: no-annotation, annotation-by-Annovar, annotation-by-VEP, and annotation-by-Snpeff (Table 2).
For FluMap, we used all three annotation options to maximise data accessibility (see Additional file 2 for details).
The software supports a wide variety of structural constituents and annotation options, as well as an exhaustive collection of fragmentation types.
This tool can be used to plot dose response curves, manage exclusion and annotation options, and perform cell classification, statistical quality controls, and reporting.
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