Difference between revisions of "Gscope"

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(Normal usage with setgscoperr)
(You can run gscope without setgscoperr)
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and if you are shure not to use Tk  
and if you are shure not to use Tk  
  gscope -project ''MyProject'' '''-notk''' puts Command arg1 arg2 arg3
  /home/ripp/gscope/bin/gscope -project ''MyProject'' '''-notk''' puts Command arg1 arg2 arg3
==Gscope has some specific applications==
==Gscope has some specific applications==

Revision as of 15:44, 1 July 2014

New : Gscope knows a lot about GeneNames

Please visit also the private Wiki Gscope Documentation Project

What is Gscope ?

  • Gscope is an integrated platform allowing the analysis of all kind of genomic data.
  • Gscope is written in Tcl/Tk and runs on all systems.
  • Gscope is specially designed to perform high throughput analysis.
  • Gscope is mainly composed of
    • all tools necessary to create the basic data
    • analysis tools
    • visualisation interface
  • it allows also
    • the creation and feeding of SQL relational databases
    • the quering and display of the available information through a web based interface (Wscope)

Gscope Documentation


Normal usage with setgscoperr

  • Gscope works on a Gscope Project (a complete genome, a set of proteins, a set of genes, etc.)
  • To run Gscope you need to define the corresponding project.
 setgscoperr MyProject

  • if you want to run Gscope in batch mode (as for example BlastPPourTous)
 glance BlastPPourTous
 glance BlastPPourTous 8
 glance "BlastPPourTous All /blast/uniref90" 12

if the command is more then one word you have to use " " the last number says how many process to run simultaneously (4 by default)

You can run gscope without setgscoperr

Since 2010/08/26 it is possible to run directly gscope

gscope -project MyProject puts Command arg1 arg2 arg3

and if you are shure not to use Tk

/home/ripp/gscope/bin/gscope -project MyProject -notk puts Command arg1 arg2 arg3

Gscope has some specific applications

How it works