by Elizabeth Swanberg | Sep 9, 2019 | FAQs
HOW DOES CREDIT ACCOUNTING WORK? All Actions, Structure Predictions, and Analysis tools consume credits. Anything that uses credits is activated with a green button. Though the button can say Run, Save and Run, or Run x Sequences depending on which tool is being...
by Elizabeth Swanberg | Sep 5, 2019 | FAQs
Cyrus Bench is meant to be provide an easy-to-use GUI so you can run Rosetta without the months of necessary training that are needed for the full version of Rosetta. Bench has the majority of Rosetta tools that are needed for most structure prediction, modeling or...
by Elizabeth Swanberg | Aug 28, 2019 | FAQs
Cyrus Bench has implemented DNA/RNA handling in order to allow loading and modeling with these highly biologically-relevant molecules. Rosetta is excellent at modeling with nucleotides present. It has been successful at modeling proteins with DNA and RNA for deriving...
by Elizabeth Swanberg | Apr 22, 2019 | FAQs
Please email support@cyrusbio.com to request to add another...
by Elizabeth Swanberg | Jan 20, 2019 | FAQs
If you see this error: ‘Please ensure that your collection name contains only valid characters as defined at support.cyrusbio.com‘ You have entered a non-accepted symbol into a name field. Below are the only symbols that are allowed in name fields:...
by Elizabeth Swanberg | Jan 20, 2019 | FAQs
You can reset your password by visiting accounts.cyrusbio.com and clicking Trigger Password Reset....
by Elizabeth Swanberg | Jan 15, 2019 | FAQs
If you are experiencing unusual behavior is CAD, we will be happy to help you fix the issue. Some issues can be resolved by closing all tabs, exiting CAD, and then reopening CAD. Some issues will disappear during this process because they are browser-related (we...
by Elizabeth Swanberg | Jan 15, 2019 | FAQs
When a structure is imported through the Structure Loader, Bench concatenates all chains in the PDB file into a single long string of residues. The chains will be in the same order as they appear in the PDB file. This reflects the protocol used by Rosetta. As a result...
by Elizabeth Swanberg | Jan 15, 2019 | FAQs
The RMSD values provided by Bench are calculated using the alpha carbon positions of the structures being...
by Elizabeth Swanberg | Jan 15, 2019 | FAQs
The scoring metrics from HM and CAD are listed below as they appear left to right (lower is better): Score is a summary of the Rosetta energy function, reported in Rosetta Energy Units. When no other specific considerations apply, this is how one should rank models....
