Conversion of RefSeq coordinates to genomic coordinates

[ngssupporter]

Dear Forum,

This is my first thread in this Forum and I am pretty new to Bioinformatics. My problem is that I need convert genomic (chromosome) coordiantes to specific RefSeq coordinates. I know that there is the NCBI remapping function, but I would need to perform this conversion without internet-connection and for any custom sequence. I have been going through all sorts of forums, but never found solutions to my problem. Does anyone have an idea how to solve that?

Many Thanks,
Roman

[Richard Finney]

Check this out ...

http://useq.sourceforge.net/cmdLnMenus.html#SamTranscriptomeParser

It might be what you want.
(via : http://www.novocraft.com/wiki/tiki-i...he+Spliceosome )

[ngssupporter]

Thank you for your fast reply, I still couldn't figure out how to extract the information I need, but I will try with the hints you gave me. Thanks!