Mercurial > repos > drosofff > msp_oases
diff README @ 0:eedbe32980bb draft
planemo upload for repository https://bitbucket.org/drosofff/gedtools/
| author | drosofff |
|---|---|
| date | Sun, 21 Jun 2015 14:38:06 -0400 |
| parents | |
| children | 68ed36eed6c5 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/README Sun Jun 21 14:38:06 2015 -0400 @@ -0,0 +1,18 @@ +#Created 28/11/2014 +#Christophe Antoniewski, CNRS/University Pierre et Marie Curie, drosofff@gmail.com +# inspired from the oases wrapper developped by Konrad Paszkiewicz, Exeter Sequencing Service, University of Exeter + +Oases optimiser + +This Galaxy tool is intended to provide a crude but effective method of producing semi-optimised transcriptome assemblies. +It operates by performing a number of user defined Velvet assemblies upon which Oases is then run. +The results of all of these runs are then put through a final Oases step where they act as scaffolds for the main assembly. +Note that this wrapper is designed to focused on small RNA reads from small RNA sequencings and will run velvetg with kmers ranging from 11 to 35 +Prerequisites: + +1. Enclosed scripts +2. package_ged_velvet and package_ged_oases dependency packages + +Limitations: + +This is a crude optimisation step which DOES NOT try to evaluate the quality of each assembly or map to any reference cDNA.