On 12/04/2011 09:22 PM, Peter Rice wrote:
On 04/12/2011 10:25, Stefan wrote:
2011/7/7 Peter Rice<p...@ebi.ac.uk>:
Very close to release date next week, so hard to do anything
immediately.
are there any news in plasmid documentation and in-silico cloning with
EMBOSS? In the last month I was asked 4 times if this is possible with
EMBOSS. People like it to work with EMBOSS and want to do that things
also with this suite.
Can you give us some examples of what you would like to see? Examples
always help us to design new applicatons.
Hi Peter and Stefan
Please allow me to jump in and tell you about our situation:
Our wet lab scientist use depending (which lab/university they are
coming from) a combination of old commercial products (which we can
still use thank to the perpetual licenses) and free/open source products
like 'Serial Cloner', 'Ape', 'Gentle', etc
I constantly 'preach' how vital it is to make sure you safe each
sequence/plasmid/etc not only in the tool specific format, but also in a
text format like embl or genbank, where all the annotation is stored in
the Feature Table
Thanks to the Galaxy framework, our lab scientist are using more and
more EMBOSS tools. Now, it would be very handy if there was an EMBOSS
drawing tool (even a very simple one) which takes an embl or genbank
file as input and creates something "colorful". By default each Key or
Qualifier is given a specific color and shape (eg 'arrow'). And you can
change them as options.
I hope this works as a use case?
Regards, Hans
Hans-Rudolf Hotz, PhD
Bioinformatics Support
Friedrich Miescher Institute for Biomedical Research
Maulbeerstrasse 66
4058 Basel/Switzerland
We still only have cirdna, mainly because we are limited by the plplot
graphics library (and would welcome suggestions of other graphics
libraries we could try).
We have extended the capabilities by creating input files from some
other applications.
regards,
Peter Rice
EMBOSS team
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