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Franck Stefani
- Male
- Melbourne, VIC
- Australia
- Blog Posts
- Discussions (10)
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- Groups (2)
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Franck Stefani's Page
Latest Activity
Franck Stefani replied to Franck Stefani's discussion 'Column mismatch' in the group Biocode LIMS plugin"Hi Steve,
Thanks for your quick reply. Yes I have got different FIMS databases and they are all excel spreadsheets. Meanwhile the release of a new version of the plugin, I may try to create a new geneious folder (a new and empty data storage…"
Steven Stones-Havas replied to Franck Stefani's discussion 'Column mismatch' in the group Biocode LIMS plugin"Hi Franck,
Are you using an excel file for your FIMS by any chance? We found a problem with annotating documents repeatedly where moving columns around in the excel file could screw up the document annotating. This could also happen if…"
Franck Stefani replied to Dirk Erpenbeck's discussion 'Primer list issue' in the group Biocode LIMS plugin"Hi Dirk,
Yes that was helpful to fix the never-ending indexing. Thanks
Franck"
Franck Stefani replied to Dirk Erpenbeck's discussion 'Primer list issue' in the group Biocode LIMS plugin"Hi Dirk,
I have got the same problem. How did you fix it?
Cheers,
Franck"
Gert Woerheide replied to Franck Stefani's discussion 'Using Biocode' in the group Biocode LIMS plugin"Excellet Steve, thanks for all the info. Much appreciated as usual!
Please let us know about the MySQL FIMS as early as possible (we would happily beta test) since our LabDB is based on MySQL, and if we could directly tap into it without having to…"
Steven Stones-Havas replied to Franck Stefani's discussion 'Using Biocode' in the group Biocode LIMS plugin"Hi there Gert,
FIMS/LIMS data is attached to your sequences when you annotate them using the function, or download the traces from the LIMS. Those fields and values will stay on your sequences until you run the annotate function again,…"
Gert Woerheide replied to Franck Stefani's discussion 'Using Biocode' in the group Biocode LIMS plugin"hi there, is it possible (and without danger) to use different Excel FIMS? We have one for a large barcoding batch of external samples (about 17,000) and one for the general lab use (a couple of thousand samples). Is the FIMS data saved in the LIMS…"
Franck Stefani replied to Conrad Schoch's discussion 'Homopolymeric bases problem' in the group Fungi"Hi,
I think this paper provides a good set of solutions against polymerase slippage:
http://www.biotechniques.com/multimedia/archive/00087/BTN_A_000113369_O_87854a.pdf
Franck"
Franck Stefani replied to Conrad Schoch's discussion 'Homopolymeric bases problem' in the group Fungi"Some solutions are suggested here: http://pan.stanford.edu/section_html/DNASEQ/analysis.html"
Franck Stefani replied to Conrad Schoch's discussion 'Homopolymeric bases problem' in the group Fungi"Hi there,
I am facing polymerase slippage with Dermocybe specimens (40% of my ITS sequences are messy...) because of the presence of poly-T or poly-G either in the ITS1 or 2. Until now, I have used the primer sets ITS1-F/ITS4 or ITS1-F/ITS4b…"
Steven Stones-Havas replied to Franck Stefani's discussion 'Using Biocode' in the group Biocode LIMS plugin"Edit history is something else we've considered. It's not implemented now, but it's one of our long-term goals (along with properly dealing with security and multiple user accounts, so that the history can be recorded against…"
Gert Woerheide replied to Franck Stefani's discussion 'Using Biocode' in the group Biocode LIMS plugin"One thing I just noted is the History field for each item created. What is this currently used for? It does not really display the history of the item, i.e. for an extraction plate it should show who created the plate and when, and then subsequent…"
Steven Stones-Havas replied to Franck Stefani's discussion 'Using Biocode' in the group Biocode LIMS plugin"Hi there guys,
You can delete plates in the LIMS, but not workflows (deleting extraction plates deletes all workflows associated with those extractions though). Just search for the plates you want to delete, select them, and hit the…"
Franck Stefani commented on Steven Stones-Havas's group 'Biocode LIMS plugin'"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…"
Profile Information
- Institution/Organization
- Royal Botanic Gardens - Melbourne
- Title/Position
- Postdoctoral fellow
- I’m involved in, or am interested in the following barcoding initiatives
- DNA Barcoding Initiative for Conservation, Database Working Group, Data Analysis Working Group
- I’m involved in or interested in the following iBOL Working Groups
- WG1.3 Fungi
- Keywords about my barcoding projects (separate each choice with a comma)
- Dermocybe, Cortinarius, high throughput sequencing
- I’m involved in the following aspects of barcoding:
- Fieldwork/specimen collecting, Museum work/specimen curation, Labwork/generating barcode sequences, Management of barcode data, Analysis of barcode data, Using barcode data in taxonomy/systematic biology
- Current Project(s)
- Molecular phylogeny and barcoding of Australian Cortinarius subg. Dermocybe
Comment Wall (1 comment)
- At 8:23am on November 30, 2010,
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