OligoChecker X 2.21.25 review
DownloadOligoChecker X keeps a record of the oligos in your lab (or you can use the provided Excel template).
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OligoChecker X keeps a record of the oligos in your lab (or you can use the provided Excel template). You then just drop your sequence onto the program and OligoChecker outputs which of the oligos are suitable for PCR. Select two oligos and you are shown the alignment of the oligos on the sequence and the PCR product. To run a different PCR just click on another suitable oligo.
Do you have a print-out of your sequence with the position of the primers penciled in?
Are you using Excel to maintain a list of your oligos?
Have you just moved from working on one gene to working on a similar one and wonder which primers you can still use for your PCR?
Do you subclone and rearrange sequences and somewhere along the line lost track on which primer to use where?
Have you started in a new lab, inherited a box of oligos and a folder full of printouts that came with them but no information on what they were ordered for?
Have you ordered and waited for primers because you don’t know which of the ones available you can use with your sequence?
If any of these sound familiar then OligoChecker might be for you.
What's New:
added "make selected text uppercase"
added "make selected text lowercase"
changed all text fields to conform with standard behaviour (select all works)
added speech feedback to input of oligo sequences
added readback of oligo sequences (or just the selected part)
fixed: if the sequence contained numbers then these were also shown in the PCR product
added "Keep only GATC" to Edit menu (works on selected text in a sequence)
added "Keep only IUPAC codes" to Edit menu (works on selected text in a sequence)
added "Keep only extended IUPAC codes (includes 4,5,6)" to Edit menu (works on selected text in a sequence)
cleaned up tab order in oligo window
added "Reverse selected sequence" to Edit menu (works on selected text in a sequence)
added "Invert selected sequence" to Edit menu (works on selected text in a sequence)
added "Complement selected sequence" to Edit menu (works on selected text in a sequence)
added option "Speak on entry" to Edit menu
try to merge custom speech classes and custom DNA sequence field classes - not working well
changes to ListBox background colouring in REALbasic require modification in my code - implemented
separated custom "speech class" and "DNA sequence class" again
start implementing a new recognition algorithm that deals with degenerate codes
got new recognition algorithm that deals with degenerate codes working (albeit too slowly at the moment)
added option to select allowed DNA codes (GATC only, IUPAC, or extended IUPAC)
improved calculation of position of selected sequence text
fixed a bug where non-DNA characters in the DNA sequence could prevent suitable oligos to be found
fixed that dropping a new sequence would still leave "x suitable oligos found" on top of the result box
added option to change text size of the controls and fields
added HelpTags
fixed some mistakes in the help texts
made size of Listbox with selected oligos dependend on which platform it is run on (in order to accommodate larger font on Windows)
added option to turn help tags / tips on and off
changed default font for Windows from "System" to "Arial" as the system font does not scale properly on Windows, e.g. font sizes 1-12, 13-15, 16-17, 18-21, etc. are all displayed the same. So going from size 9 to 12 on Windows changes nothing. Arial was chosen as it is the only easily readable font that is available on all Windows platforms.
fixed a bug where changes to the text size did not work correctly
Fixed a bug where changing the font size would leave display artefacts on screen
added more data to Nucleotide info window
fixed a bug where a sequence dropped onto the sequence field was not shown until the window was active
Streamlined code (removed duplicate code segments)
modified highlight behaviour of listboxes to emphasize selection
made sequence window in "Measure Oligo Concentration" Window multiline to accommodate long oligos
Found bug in Windows version (Preference file not found)
Cleaned up Nucleotides window
Lock oligo list while oligo is open for editing to prevent data written into the wrong place if oligo list is sorted in the meanwhile
Added "Save as new" to Oligo window
Oligo list now jumps automatically to newly added oligo
Cleaned up tab order in Oligo window
changed "order number" to "delivery number" and "primer order number" to "primer delivery number" to prevent confusion with "PO number"
Disabled "circular" checkbox as functionality is not yet implemented
changes to make repeated entries faster and clearer
"save" button in oligo window stays disabled until data actually change
squashed a "out of bounds error" when a new oligo was saved into an empty database.
OligoChecker X 2.21.25 keywords