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zEST: Gene discovery by EST clusters - Message forums
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Expanded view | Monitor forum | Save place
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Welcome to Open Discussion
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Hi everyone!
I'm using iupred2a to select the disordered regions in protein sequences and there is 2 versions of it: the web tool version and the command line tool version. I have tried to use the command line tool to process my data but i found a difficuly using the command lines indicated in the help manual. Would anyone of you please, help me to find out which are the command lines that i should use to select the disorded regions and how?
Thank you for your help and your understanding
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Not much stuff available ;-)
Karl
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Hello,
sorry if the web navigation is hard...
You will see contigation examples here :
http://bioinformatics.org/zEST/
(this link we'll redirect you to
my home page.)
I'm now producing cluster & consensus for
with public EST of "Anopheles gambiae"
(paludim vector mosiquito).
I will put the results under the
above adress...
Other species will follow...
thanks for your attention,
Hubert.
--
Hubert Wassner
web : http://mapage.noos.fr/hubert.wassner/
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Couldn't find any low-level details about how the new assembler is implemented (algorithms, coding language, limitations).
Is there any trial version of the software available for download/evaluation?
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CLOBB
Submitted by Nobody; posted on Monday, June 02, 2003
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tried clustering with CLOBB.
anyone used this script b4?
would like to compare notes and opinion about this script
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Hi all,
I am trying to cluster 300 K EST's that i got from the NCBI using stackPack. The clutsering give me results totally different from what is present in uniGene. I happen to get 2 large clusters (64k and 34k sequences). If i try to break them by increasing the identity or length of region compared, i get and huge amount of singletons.
I was wondering if anyone dealt with such a hassle before ???
Any suggestions will be greately appreciated.
Thank you
bingo11{AT}hotmail.com
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Are there any tutorials for 3D jigsaw
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I obtained a genome from NCBI. For instance, Haloquadratum walsbyi strain AM180088.1. But the FASTA file contain two parts. The first part marked as
>AM180088.1 Haloquadratum walsbyi DSM 16790 complete genome
The second part marked as
>AM180089.1 Haloquadratum walsbyi DSM 16790 plasmid PL47 complete genome
What does that mean? In particular, the second one "plasmid"? If it is called complete genome should it all in one? Why divide into parts?
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