[BioC] Importing data into Bioconductor

Fernando Henrique Ferraz P da Rosa feferraz@linux.ime.usp.br
Thu, 16 Jan 2003 16:47:44 -0200


  The files I attached appear to be corrupted, so I put them on my website:
     http://www.linux.ime.usp.br/~feferraz/tmp/toronto-begin.txt and
     http://www.linux.ime.usp.br/~feferraz/tmp/toronto-end.txt
   

Fernando Henrique Ferraz P da Rosa writes:
>  Hi, I am an statistics student trying to learn how to do some Microarray DNA Analysis. I've got here a data set that was already analysed twice (using some other software, like MAExplorer) and I'm going to try analysing it using Biocondutor and R, to check if I get the same results.
>  The main problem I am having is how to get the data I have into R/Bioconductor. It seems like a proprietary format and I'm not sure on how to convert it to a format that Bioconductor can read.
>  I've searched through all documentation I found on Bioconductor's site and also tried a search on Google on 'microarray data formats' but I didn't find anything useful.
>  The data is in pure txt format and seems to be tab-delimited (easy to parse using perl - after I find out what should I convert it to) and I am sending attached the output of head -100 data.txt and tail -100 data.txt.
>  I'd really appreciate some references on what should I convert this data to so that Bioconductor reads it painlessly. I program in c and perl and have some familiarity with R, so using this tools wouldn't be a problem.



Fernando Henrique Ferraz P da Rosa   <feferraz@linux.ime.usp.br>