ApE A plasmid editor

Multiplatform DNA editing software

[ApE A plasmid editor @ApEplasmid]

I've started a YouTube channel with tutorial videos.
https://t.co/IOZjBT9JDE

There are 11 so far in the tutorial playlist.
https://t.co/mukwJDwFBP
Let me know if you have requests for any topics I should add to the tutorials.

[ApE A plasmid editor @ApEplasmid]

Yes, it's missing chapter 18- that's in the works ("Other tools"), but I wanted to get it out sooner than it would take to write that last chapter. Most of those tools are not that interesting to most people.

[ApE A plasmid editor @ApEplasmid]

There's a new user manual for ApE

[ApE A plasmid editor @ApEplasmid]

Available as a pdf from the main site:https://t.co/bZQI7kmhh3

[ApE A plasmid editor @ApEplasmid]

@ATinyGreenCell @PeterCiaccia It then generates the assembly, including PCR primers. If there are two adjacent PCR fragments , it optimizes the junction(s) to use the most orthogonal overhang(s).

[ApE A plasmid editor @ApEplasmid]

@ATinyGreenCell @PeterCiaccia If you need to design a piece as a PCR product, you can use the Designer interface. You add each fragment that you already have, then use a selected region as the template for the other piece(s).

[ApE A plasmid editor @ApEplasmid]

@deepchinker @ATinyGreenCell @DNAutics Have you tried ApE?

[ApE A plasmid editor @ApEplasmid]

@SynBio1 @ATinyGreenCell 😢

[ApE A plasmid editor @ApEplasmid]

Are people seeing a speed up for the inline display in the new version? Is it fixed, not any different, or better but still needs some work? Thanks

[ApE A plasmid editor @ApEplasmid]

@idreesashah I have at least a partial fix in v 3.1.9 (just posted recently). Does it still happen in that version?

[ApE A plasmid editor @ApEplasmid]

I just uploaded thatlatest version- 3.1.9. This should fix a long-standing problem with slow updates to window size and feature edits when viewing in inline mode. Tested on Mac more than Windows. Let me know if you see any bugs

[ApE A plasmid editor @ApEplasmid]

@revgalerivs The toolbar icon size can be set in the preferences.
Contol-clicking the toolbar lets you configure the layout. If this isn't available, update to a newer version.

The menu bar text font and size are set by the main OS settings.

[Idrees A Shah @idreesashah]

@ApEplasmid why do we see difference in the number of restriction enzymes displayed in two laptops having same version of ApE

[ApE A plasmid editor @ApEplasmid]

@idreesashah The Letter and Number codes next to each enzyme are the Rebase supplier codes and the suggested digestion temperature.

[ApE A plasmid editor @ApEplasmid]

@idreesashah If you do a lot of Golden Gate cloning, you probably want to add your common GG enzymes to your default set to use in the GG tools. Those enzymes are specifically available in the Golden Gate tab of the enzyme selector sub-dialog

[ApE A plasmid editor @ApEplasmid]

Just posted the 3.1.8 update. Let me know if you find any bugs. It opens in inline feature mode. If you prefer compact mode or if you are opening large sequence files, you can turn off inline mode in Preferences (aka Settings).