Changes between Version 18 and Version 19 of SatelliteUseCases

Timestamp:

2009/03/20 14:21:13 (16 years ago)

Author:

vachiranee

Comment:

--

SatelliteUseCases

@@ -60 +60 @@
 '''*SNPs data'''[[BR]]
 
-ANNOTATOR currently cannot analyse SNPs data [[BR]]
+ANNOTATOR currently can not analyse SNPs data itself but can [[BR]]
 Galaxy (http://galaxyproject.org) and RGenetics (http://rgenetics.org/)
-        quality control, ancestry, case-control analysis, tdt, oter statistical tests
+        quality control, ancestry, case-control analysis, tdt, oter statistical tests[[BR]]
+-can link dbSNPs to Galaxy for further analysis
+
 
 '''*Multifasta format (amino acid sequences)'''[[BR]]
 
+ANNOTATOR can upload multifasta format of amino acid sequences -> Prim-seq-an algorithm[[BR]] 
+BioMart can upload GeneID but not the sequences to retrieve information associated to the GeneID[[BR]]
+jORCA provide list of analysis can do with FASTA format[[BR]]
+
+
+
 '''*Multifasta format (nucleotide sequences)''' [[BR]]
+
+ANNOTATOR can upload multifasta format of nucleotide sequences -> Prim-seq-an algorithm[[BR]]
+
 
 '''*Genome data'''[[BR]]
@@ -124 +135 @@
 - Ability to do batch jobs, i.e. large number of proteins annotated by our software (request came from many)[[BR]]
 - ANNOTATOR should be downloadable and deployable somewhere local[[BR]]
-- 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]]
+- 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]]
 - 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]]