Saturday, August 30, 2014

pLOT 1.0.6a

      pLOT 1.0.6a is out.  This patch adds two NEB PFGE ladders for the virtual gels and includes a few minor fixes.  The mouse icon changes when hovering over a feature or label.

pLot 1.0.6a Download Links
*If you have previously performed a complete installation of pLOT v1.0.4
you can download the patch alone.  Otherwise
use the full installation*

Full Installation: pLOT v 1.0.6a Full [Link 1] [Link 2]
Patch Only: pLOT v 1.0.6a Patch Only [Link 1] [Link 2]

   Like the pLOT Facebook Page for up-to-date information on new releases, to report bugs, to suggest new features, or to volunteer as a beta tester.  You can also subscribe to follow this blog for email notification of new posts.  If you experience any bugs or glitches, please feel free to leave a comment explaining the error so that I can implement a fix ASAP.

Thursday, August 14, 2014

1.0.5d fixes a bug in redrawing annotated features after doing a full-sequence reverse/complement conversion.  This was just a graphics glitch and files/annotations had previously saved correctly so no need to worry about that =)
*Please note that you should have installed 1.0.4 in order to apply this patch*
pLOT v 1.0.5d
pLOT v1.0.4 this is required to use the 1.0.5d patch

Tuesday, August 12, 2014

It seems there was an error occurring when a new sequence was entered.  This is now fixed in this patch.  Apologies for the issue.

pLOT v1.0.5c Patch

Saturday, August 9, 2014

Version 1.0.5b is a minor update that changes the spacing in the circular map to a more evenly spaced form where groups of labels are more centered on the middle of the group.  It also fixes a bug that occurred sometimes when only a single label was being drawn on the linear map.

Old Spacing
New Spacing

Thursday, August 7, 2014

pLOT v1.0.5a is out!  This update:

  • Fixes a bug that caused enzymes to not be shown after a gel is displayed.
  • Linear plots now show labels written vertically and spaced correctly as opposed to the previous, uglier horizontal texts.  See image below!
  • Since some annotated sequences are short relative to the whole sequence and thus don't take up much space on the map, clicking on them can be difficult at times.  Additionally, annotations behind others cannot be clicked on either.  To fix this, labels for annotations are now clickable and bring up the same options/menus/etc... as if you had clicked on the feature itself on the map.  Many thanks to my fellow labmate "NL" for this suggestion.
Known Bugs & future fixes:
  • There is still a FloodFill bug where most of the map will get colored if you view a linear sequence where an arrow graphic spans the origin.
  • I'm not thrilled with the spacing of labels in the circular map and will be implementing a change soon to make the spacing more even.
  • Editing base pairs through the edit menu can result in shifts in the sequence without shifting the bp at which annotations begin.  This will be fixed shortly but it is recommended that you do not use this feature to add or subtract base pairs from the sequence, simply to change existing ones.  Use the "Insert/Delete Sequence" from the Edit-> Sequence menu.

As always, feel free to like the pLOT Facebook Page for up-to-date information on new releases, to report bugs, or to suggest new features.

Download Links
*This is an update for the executable only provided you have v1.0.4a previously installed.  Decompress the executable and place it in the pLOT directory, overwriting the old version*

pLOT v1.0.5a Update See 1.0.5b post
pLOT Sample Files
pLOT Manual v1.0 (Very rough draft)

Wednesday, August 6, 2014


pLOT version 1.0.5a is set to come out soon (before the weekend at the latest, probably in a day or two).  This patch changes the text direction in linear plots from the previous horizontal form (which was ugly, imho) to vertical.  Because some short-sequence features can take up very little space, clicking on them can be challenging in some situations.  To solve this, clicking the labels for the annotated feature will now do the same thing as if you clicked on the feature itself.  My thanks to my fellow labbie "NL" who made this suggestion!  As always, feel free to like the pLOT Facebook Page for up-to-date information on new releases, to report bugs, or to suggest new features.