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Biocode LIMS plugin

Information

The Biocode LIMS plugin is a free suite of plugins to Geneious that allow you to track and manage your entire lab workflow, from tissue samples through to Sequence analysis and Genbank Submission. Visit our website to download the plugins.

Website: http://software.mooreabiocode.org
Location: Moorea, French Polynesia
Members: 39
Latest Activity: 3 hours ago

Introduction

Hi guys,

We intend this group to be the hub of our communication with the barcoding community. We are extremely proud of the Biocode Plugin, but we don't expect it to be perfect from the first release. If you have a problem, a question, or a suggestion about how we can make our plugin better, please start a thread in the discussion forum. Alternatively, you can email us at support@mooreabiocode.org.

Happy Barcoding!

Discussion Forum

Verify Taxonomy columns 3 Replies

Hi there,After you aided with our previous problems so nice and quickly (thanks a lot!!) - here's a new one ;-):We are implementing the Biocode plugin (I use 2.3.3 with Geneious 5.6.3) for our Sponge…Continue

Started by Dirk Erpenbeck. Last reply by Gert Woerheide 3 hours ago.

missing column data when annotating with Biocode 1 Reply

Hi,first of all thanks for the great plugin which saves me hours of copy and paste work :-)Anyway I have a little issue with Annotation of FIMS data via Biocode Plugin on Geneious 5.5.6.When using…Continue

Tags: file, Biocode, Plugin, Excel, import

Started by André Schütte. Last reply by Steven Stones-Havas Apr 30.

Cherry Picking 1 Reply

Hello! My name is Helena Davies and I am working on Barcode UK at the National Botanic Garden of Wales. We are using Biocode LIMS, which has been fantastic in managing our data. However we have come…Continue

Started by Helena Davies. Last reply by Steven Stones-Havas Mar 26.

Primer list issue 6 Replies

Hi all,We currently have trouble with the primer list to be used with the Biocode LIMS. We are using Geneious 5.5.4 Mac 64 and the Biocode plugin 2.2.1 and 2.2.2. When choosing a primer for the PCR…Continue

Started by Dirk Erpenbeck. Last reply by Steven Stones-Havas Dec 23, 2011.

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My Comment Wall

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Comment by Steven Stones-Havas on December 23, 2011 at 4:53pm: Hi Gert,

Publishing the documentation is one of the things that got interrupted by the holidays - I'm in the process of publishing it here: http://software.mooreabiocode.org/index.php?title=Reporting but I'm having some trouble with the screenshots. I'll put up as much as I can by the end of today, but I suggest that the best way to learn is to have a play with it. If there's something in particular that you would like to get reporting on, and you can't figure out how to do it, please let me know!

Merry Christmas!

Comment by Gert Woerheide on December 22, 2011 at 3:08am: Very cool, Steve, great job!

Is there some detailed documentation about the new features? E.g. the reporting function etc.? Nice little status button btw (red/green), well done...

Comment by Steven Stones-Havas on December 22, 2011 at 12:35am: Hi guys, We've just released version 2.3.0 of the plugin. It contains a lot of requested features, as well as a reporting and charting module. Check it out at http://software.mooreabiocode.org

Comment by Steven Stones-Havas on November 10, 2011 at 9:18pm: Hi guys, I've added the extra field to PCR and Sequencing reactions. check the january thread for details

Comment by Gert Woerheide on November 10, 2011 at 4:15am: Yes, something like this has already been requested in January!

Comment by Steven Stones-Havas on November 10, 2011 at 3:26am: Hi there James,

That's an interesting problem. Perhaps we could have an extra reaction state, that sits in between pass and fail (much like the medium bin that we use for sequence binning in Geneious). I would rather call it something more generic than "resequence" though. How about "low quality" to indicate that there is a sequence present, but it isn't of sufficient quality?

Comment by James Kitson on November 9, 2011 at 7:15am: Hi Steven,

Most of the time I get pretty good sequence by only sequencing forward but occasionally I need to reverse sequence to get the end of my fragment. Currently I mark these in the LIMS as fails so that Biocode can make plates and lists etc automatically but I also do this for PCRs/sequencing reactions that have failed completely. This has the problem then that complete fails are then mixed in with samples that only need to be resequenced. Can you think of a way of getting Geneious to differentiate between the two scenarios or can we have an additional "resequence" reaction state added in future versions?

Thanks,

James

Comment by Steven Stones-Havas on May 13, 2011 at 2:27am: Hi guys,

I'm pleased to announce the release of the Moorea Biocode plugin version 2.1! To see the exciting new features we've added, and to get yourself a copy, visit http://software.mooreabiocode.org

Comment by Steven Stones-Havas on January 24, 2011 at 10:35am: It would be pretty simple to add an extra option for strips, where you could choose X strips to produce an 8 by X plate. I think that should meet your needs.

Comment by Franck Stefani on January 24, 2011 at 8:02am: Hi Steven,

I am used to set up my PCR reactions in strips of 8 wells (as Gert seems to do...) when I plan to amplify less than 48 samples. Over 48 samples I shift to a plate. Maybe the PCR reaction in biocode should be displayed in X columns (x<6) of 8 rows each, for PCR reactions with less than 48 samples. But I really do not know how much complex this could be for you to make theses changes.