How does DrBioRight perform statistical analyses?
The analytics in DrBioRight was developed based on analytic base modules using Python and R, which are highly extensible and ready-to-use for integrating community-contributed modules. All contributed modules can be easily integrated into our analytics pool by adding the module function as well as a customized module configuration file. The details are available in the developer center.
I did not get the analysis asked for. What should I do?
First, try using
:add_pipelines to build your own analytic pipelines. (Please contact our group if you want to use this high-level command.)
If that does not meet your need, please submit a module request. (Please click “guest” or your username if you are a registered user. Check the drop-down list to find “Request a module”). A notice will be sent to you once the module is available online.
How can I ask a new question when the conversation is stuck somewhere?
Oops, sorry to hear that. DrBioRight is still learning the way you talk! Please click the recycle icon above the message box (the third one from the left). It will start a new conversation right away!
How do I report bugs?
DrBioRight is under active development, and all bug reports are most welcome. Please click the bug icon above the message box (the far-left icon). Please describe your discovery and submit it! It will automatically capture the conversation between you and DrBioRight and generate a bug report for us!
What are the result formats provided by DrBioRight?
It depends on which analytic module you use. But in general, DrBioRight provides a full report “report.html” to show all the results and the analysis details (codes and parameters are also included for reproducibility). Also, a table with the rendered visualizations would be shown in the conversation for you to quickly review the results. Tables and plots can be downloaded in multiple formats. Tables can be saved as csv or excel or printed as pdf; plots can be saved as png, jpeg, pdf, or svg.
How can I change the analysis parameters?
All parameters (e.g., method of differential test, p-value cutoff, etc.) can be set in the analytics mapper file.
How can I save a plot?
Most of our figures can be saved in png or pdf format by clicking the top-right button on each plot.
What public datasets can be analyzed by DrBioRight?
DrBioRight can analyze TCGA, ICGC, CCLE, GTeX, and TARGET for now. GEO datasets can be automatically downloaded to DrBioRight through RNAseq quantification or mutation calling analytic modules. More public datasets are on their way to DrBioRight!
Can I analyze my data using DrBioRight?
Currently, all of the datasets curated in DrBioRight were obtained from the public domain, such as TCGA and ICGC. We are working on adding a new module to allow users to analyze their data using the DrBioRight analytic platform.
Can I download a local version of DrBioRight?
To maximize the utility of DrBioRight, all the module code is freely available on our website to encourage developers to contribute more valuable modules for data analytics and visualization. An executable local version may be available soon.