This page is for users of BioLabDonkey and BioLabCalculators to report bugs or any opinion, wishes about these apps.
Mac and iPhone software for molecular biology
Mac and iPhone software for molecular biology
This page is for users of BioLabDonkey and BioLabCalculators to report bugs or any opinion, wishes about these apps.
I can’t get it to find ORFs in my plasmid sequence.
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Hi,
Please, give me more details what you did to get ORFs then I can help you. Maybe you didn’t set up the size of minimal ORF in the corresponding textfield ? Without this value the app cannot search for ORFs. Also, the search will be perform if user selects the region of search in the sequence.
Best regards
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I have the same problem too, it is not at all user friendly even though it seems so, a lot of features do not work so easily!
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Hi,
Thank you for your feedback, it will help to improve the app. Please, write me what exactly you did to get OFRs and give me more details about the problems you have with this function ! Have you selected part of the plasmid sequence or whole sequence ? Which other features did not work for you ? Did the program crash or you feel uncomfortable with user interface, for the features you are using ?
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Hello,
I am considering to purchase BiolabDonkey. I do a lot of cloning experiments. Can this software be used to perform insilico cloning, restriction digestion, and ligation reactions? Let me know.
Thank You
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Hello Krishna Kurthkoti,
In BioLabDonkey you can perform a restriction analysis – find positions of restriction sites (present, not present, number of cuts) in a real DNA sequence. If you mean as insilco cloning a graphical representation of cloning scheme of your insert into a vector like in SnapGene program, BioLabDonkey is not providing such functionality. In BioLabDonkey you should copy/paste your insert sequence into a vector sequence in the corresponding restriction sites. BioLabDonkey provides a virtual DNA gel of digested DNA fragment for the restrictases you selected. In BioLabDonkey you can also calculate amounts of insertion and vector needed for a ligation reaction for different insertion/vector ratios.
If you have further questions, let me know.
Best regards,
Valeriy
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Thanks for the clarification Valeriy. Are you considering adding such functionality in future releases?
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Hi Krishna Kurthkoti,
Before switching to program developing, I have spent more than 20 year in molecular biology wet lab doing a lot of cloning and, IMO, I see usage of such a graphical cloning not good for the professional education. Dealing with a DNA sequence directly gives you solid skills while a graphical cloning is too superficial. So, the implementation of such a functionality has lowest priority, not for near future.
Best regards,
Valeriy
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I just purchased the BioLabDonkey and it crashed instantly when I tried to open a file (.dna file, created by SnapGene). I tried a second file, crashed, tried a third file, crashed again. Every time I sent the crash report to Apple. What is going on? Brand new Macbook pro, OS10.15.6, 16g RAM.
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Hi,
I don’t have any crash report from Apple! Please, send me to my e-mail box a crash report and a file (if it is possible) you have tried to open, that I can fix the issue as soon as possible!
When I had made the function to open SnapGene .dna files, I have tested original SnapGene .dna files dowloaded from official SnapGene website – Basic Cloning Vectros – https://www.snapgene.com/resources/plasmid-files/?set=basic_cloning_vectors. I can open all of them without any problem. What kind of SnapGene .dna files you are trying to open ?
Best regards,
Valeriy
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Hi Valeriy, I reported that BioLabDonkey crashes every time when I tried to open .dna file. I have sent you an email including the crash report and some .dna files that always lead to crash. Thank you!
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Solved.
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Dear Users, please pay attention if you are trying to open a .dna file from SnapGene. You can have a problem if this file doesn’t have a date of creation in the note section. This issue will be fixed soon in a next update.
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Solved.
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I want to contig with two ab1 files. In the sequence columns, when I select unclear region (such as NNN), if the chromatogram data are automatically pop-uped and confirm the peal data, it is easy to confirm and modified and change the sequence. I significantly asked you to update like this.
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Hi,
Thank you for your feedback, it allows to improve the app ! I have just updated the function you have asked for. I will update the app in AppStore as soon as possible!
Best regards,
Valeriy
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