cc: biojava-l satyanarayana pasupuleti wrote: > Hi Mathew: > > I am new to this group. I tried mailing to the group using > [EMAIL PROTECTED] <mailto:[EMAIL PROTECTED]> but I couldnt see my mail > in the list. Any clue??
Try [EMAIL PROTECTED] and if that doesn't work, hunt arround the biojava.org web site for a link to mailing list subscription. > > Do you know how does different alphabets in a sequence can be color > coded? Do I have to use the Color class in java.awt or is there any > package in bio-java that is useful? I am reading a DNA sequence from a > FASTA file. I got the sequence using seq.seqString() method. > In the org.biojava.bio.gui package there is an interface SymbolStyle that encapsulates the rendering hints for symbols (e.g. you can set up A to be red with black outline and G to be filled with tiled union jacks with dashed purple outline). This is used in a few places, but not nearly enough (one more thing for the todo list). Do you want to print the sequence out as a string to the terminal or render it as a graphic into a swing/awt window? Take a look at the org.biojava.bio.gui.sequence package. It includes some classes and interfaces for rendering sequence information. > Also, how do I parse the BLAST output ? How far the bio-java parser is > helpful? Take a look at org.biojav.bio.search, org.biojava.program.ssbin and org.biojava.bio.program.sax - these together give you parsers for lots of formats like blast and ways to process hits into biojava objects or just intercept the information using eventbased call-backs. > > I really appreciate any code or pointers in this regard. > > Thanks a lot > > --satya > oh - and route through the demos - they may do stuff similar to what you want. > > ------------------------------------------------------------------------ > Send and receive Hotmail on your mobile device: Click Here > <http://g.msn.com/1HM1ENUS/c152??PI=44364> _______________________________________________ Biojava-l mailing list - [EMAIL PROTECTED] http://biojava.org/mailman/listinfo/biojava-l
