Hi Mousami, Yes, you can use data matrix or vector for sure. With pathview package loaded, just check the help info for the pathview function by typing in: ?pathview Read the description for argument ?gene.data?. The .rda is just a data file format for storage in the hard disk, after loading the data into R (console or command line session), you get your R data objects in any formats like matrix, vector, data.frame, list etc. You may follow the first tutorial example in page 3 of the vignette, and check the format of input data: head(gse16873.d) class(gse16873.d) HTH. Weijun -------------------------------------------- On Wed, 7/10/13, Mousami Srivastava <sm.iitbtbi at="" gmail.com=""> wrote: Subject: Query regarding "pathview" Date: Wednesday, July 10, 2013, 6:07 AM Dear?Weijun Luo, Greetings from Mousami. Myself working as a Research Fellow on R-programming.? I have tried "pathview" package with the example r-script given in the bioconductor site. But in this work most of the work has completed by using .rda file. In the Supplementary file uploaded on "http://bioinformatics.oxfordjournals.org/content/early/2 013/06/11/bioinformatics.btt285.full", mentioned that format could be both such as matrix or vector.? So, can I do my work with the help of data matrix or vector generated on R-programming console? Otherwise, I request you to please let me know the way of converting vector and matrix format into .rda format. Please do the needful. Thank you for your time. ? -- Regards, Mousami Srivastava Email : sm.iitbtbi at gmail.com?? ?? ? ??? Mob. No.: +91-9555896841? ? Research Scholar DIPAS, DRDO Delhi India