Dear Dr. Gentleman, It was my mistake, poiting people to a wrong webpage..! Below page, there is a BioC website and NIH GEO website links. http://proteogenomics.musc.edu/quickSite/arrayQuest.php?page=home&act= manage Thank you, Saurin Quoting Robert Gentleman <rgentlem at="" fhcrc.org="">: > Hi, > I am not at all sure why so many people think that it is perfectly > acceptable to give no credit for the software and hard work that so many > different contributors have made. Please, do use software that is made > available, but you also have (IMHO) an obligation to give credit where > credit is due. If you are using R, Bioconductor, and limma then you > ought to at least acknowledge this fact on your web-site. > > > Best wishes, > Robert > > > Saurin D. Jani wrote: > > Dear BioC, > > > > For FREE of cost, anyone can UPLOAD and ANALYZE microarray data, [ Overview > of > > ArrayQuest system].(looking for LIMMA method to add in to our METHOD > DATABASE) > > > > > http://proteogenomics.musc.edu/quickSite/arrayQuest.php?page=home&act= manage&process=Login > > > > Steps/Structure of ArrayQuest: > > > > 1. Create your project (microarray project) > > > > a. you can upload your data > > (your data can not be viewed by anyone else, unless if you want > to.. > > if you have alrady stored your data in to MUSC microarray > repository, can > > goto Step2) > > > > 2. Select Method from Method Database: Analysis method, which is R SCRIPTS > > currently using all BioC libraries and functions. > > > > ***Anyscript script can be used to analyze ANY GENOMIC Data.e.g, > > PERL,Javascript,SOAP,Unix Shell Script*** > > > > a. please read method description before you make a decision which > method > > is suitable for your analysis. > > > > b. please read method parameter description (what method requires, > howmany > > CEL files, or FDR threshold..) > > > > 3. Build your database : > > (you can use your own uploded data or you can search MUSC microarray > > database to get your data) > > > > > > 4. Choose your dataset: You can choose your uploaded data or you can choose > few > > files from your dataset > > > > a. use of step4 is for flexibility. e.g., Sometimes, user wants to use > only > > 5 CEL files out of 10 CEL files uploaded. > > > > > > 5. Run your analysis: (upon completion you can get an email with resulting > link > > or you can monitor your analysis) > > > > > > let me now if you have any questions..I am looking for LIMMA method to add > in to > > our METHOD DATABAESE, if anyone interested, please let me know..we can be > in touch, > > > > Saurialreadysitory, can > > goto Step2) > > > > 2. Select Method from Method Database: Analysis method, which is R SCRIPTS > > currently using all BioC libraries and fuctions. > > > > ***Anyscript script can be used to analyze any Genomic Data.e.g, > > PERL,Javascript,SOAP,Unix Shell Script*** > > > > a. please read method description before you make a decision which > method > > is suitable for your analysis. > > > > b. please read method parameter description (what method requires, how > many > > CEL files, or FDR threshold..) > > > > 3. Build your database : > > (you can use your own uploaded data or you can search MUSC microarray > > database to get your data) > > > > > > 4. Choose your dataset: You can choose your uploaded data or you can choose > few > > files from your dataset > > > > a. use of step4 is for flexibility. e.g., Sometimes, user wants to use > only > > 5 CEL files out of 10 CEL files uploaded. > > > > > > 5. Run your analysis: (upon completion you can get an email with resulting > link > > or you can monitor your analysis) > > > > > > let me now if you have any questions..I am looking for LIMMA method to add > in to > > our METHOD DATABAESE, if anyone interested, please let me know..we can be > in touch, > > > > Saurin > > > > _______________________________________________ > > Bioconductor mailing list > > Bioconductor at stat.math.ethz.ch > > https://stat.ethz.ch/mailman/listinfo/bioconductor > > > >