David Doty

Results 122 issues of David Doty

Currently, the main features of scadnano are documented in the README, and several features that have been added since that was updated are scattered across GitHub release notes. Create a...

documentation
high priority

In particular, regularly spaced ticks should be re-adjusted to start at the new min_offset.

bug

When the Selection Mode is domains, Select All (Ctrl+A) should select all domains, but it does not. Fix this.

bug

The [built_value](https://pub.dev/packages/built_value) and [built_collection](https://pub.dev/packages/built_collection) packages are used in scadnano for immutable objects. However, because it uses code generation at compile time, due to the huge number of built_value objects (both...

enhancement
challenging

This issue fixed the problem before we had helix groups: #276 Now, some helices might be selected, but none in the current helix group. So this warning should be updated...

enhancement
high priority
closed in dev

See also UC-Davis-molecular-computing/scadnano-python-package#196. This tool looks better than what we are using now, for instance: https://github.com/github-tools/github-release-notes For one, it uses the commit description, not only the message/title. It also can...

documentation
enhancement

See https://github.com/UC-Davis-molecular-computing/scadnano-python-package/issues/248.

enhancement
challenging

Support exporting to Bioneer format, e.g., https://us.bioneer.com/store/OligoPlateFileOrder.aspx See https://github.com/UC-Davis-molecular-computing/scadnano-python-package/issues/239

enhancement

cadnano shows potential crossover positions where the DNA backbones are most aligned, and offers users a one-click option to add a half-crossover at that position. scadnano should have a similar...

enhancement
high priority
challenging

Currently internal DNA modifications can only be displayed if they are on a Domain. Support storing and displaying them on Loopouts and Extensions also.

enhancement