[Genome] mapping/homology search method

[Brooke Rhead]

Hello Vladimir,

The BLAT parameters for aligning "Other RefSeq" genes (corresponding to 
the xenoRefGene tables) are:

  -q=rnax -t=dnax -mask=lower -noHead -repeats=lower

If you have further questions, please do not hesitate to contact us 
again at this mailing list.

--
Brooke Rhead
UCSC Genome Bioinformatics Group



Vladimir Kuryshev wrote:
> Dear UCSC gurus,
> 
> which method did you use to map RefSeq genes(proteins) to different 
> genome assemblies (e.g., Non-chicken Refseq to gG3).
> I try to play with blast-parameters but can get such great sensitivity.
> 
> Thank you.
> 
> Vladimir
> 
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