Sheridan Data Widgets 3.11 22
Sheridan Data Widgets 3.11 22
The GeneTonic approach inherently recognizes the fine-grained levels of RNA-seq analysis required to give meaning to the results, and implements those in an effective and tailored way. The high level of integration between the various packages makes those components available for direct access, without the need to remember the often times unknown parameters of the implementation pipelines, which in turn increases the amount of information the user is able to obtain. This is in stark contrast with the implementations of most other tools available for summarizing transcriptomic results (Tab. 1 ), with the exception of a few approaches specifically developed for RNA-seq data, which were not adapted to reuse the existing knowledge available for functional enrichment analysis, nor were completely integrated with workflows like a typical Bioconductor data package (e.g., GEO and SRA).
The key goal of GeneTonic is to provide a seamless visual interface over the data, by using a common data format and standardized visualization methods, such that it is possible to reliably explore and inspect the results of any in silico analysis, without the necessity of initial data transformations. This approach is clearly key when deriving novel hypotheses, and often the only way to avoid false-positive results, or to quickly summarize and share data in publications with limited space. These results are then concatenated into a single intermediate format before producing the final output that can be shared with downstream investigators, which may be any of the options available, including a web browser widget.
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