Changes between Version 18 and Version 19 of SatelliteUseCases

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Timestamp:
2009/03/20 14:21:13 (15 years ago)
Author:
vachiranee
Comment:

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  • SatelliteUseCases

    v18 v19  
    6060'''*SNPs data'''[[BR]] 
    6161 
    62 ANNOTATOR currently cannot analyse SNPs data [[BR]] 
     62ANNOTATOR currently can not analyse SNPs data itself but can [[BR]] 
    6363Galaxy (http://galaxyproject.org) and RGenetics (http://rgenetics.org/) 
    64         quality control, ancestry, case-control analysis, tdt, oter statistical tests 
     64        quality control, ancestry, case-control analysis, tdt, oter statistical tests[[BR]] 
     65-can link dbSNPs to Galaxy for further analysis 
     66 
    6567 
    6668'''*Multifasta format (amino acid sequences)'''[[BR]] 
    6769 
     70ANNOTATOR can upload multifasta format of amino acid sequences -> Prim-seq-an algorithm[[BR]]  
     71BioMart can upload GeneID but not the sequences to retrieve information associated to the GeneID[[BR]] 
     72jORCA provide list of analysis can do with FASTA format[[BR]] 
     73 
     74 
     75 
    6876'''*Multifasta format (nucleotide sequences)''' [[BR]] 
     77 
     78ANNOTATOR can upload multifasta format of nucleotide sequences -> Prim-seq-an algorithm[[BR]] 
     79 
    6980 
    7081'''*Genome data'''[[BR]] 
     
    124135- Ability to do batch jobs, i.e. large number of proteins annotated by our software (request came from many)[[BR]] 
    125136- ANNOTATOR should be downloadable and deployable somewhere local[[BR]] 
    126 - We were offered a potential collaboration in terms of using computing power of a Tokyo datacenter. This means the ANNOTATOR's jobs need a mechanism to be submitted to an external site.[[BR]] 
     137- We were offered a potential collaboration in terms of using computing power of a Titec TSUBAME supercomputer. This means the ANNOTATOR's jobs need a mechanism to be submitted to an external site.[[BR]] 
    127138- For better results, consistency and the ability to replicate the annotator pipeline in a remote location, we need periodic and automatic updation of the underlying databases of the algorithms.[[BR]]