CpG programs

Gary Williams, Tel 01223 494522 gwilliam at hgmp.mrc.ac.uk
Fri Dec 12 13:59:18 UTC 2003

EMBOSS has several programs for finding CpG islands:

cpgreport	Reports all CpG rich regions
newcpgseek	Reports CpG rich regions
newcpgreport	Report CpG rich areas 

The documentation (originally supplied by the author) says that for all
practical purposes you should probably use newcpgreport.

There is probably a case for retiring some of these programs to the
'make check' section of the Makefile? (i.e remove them from the standard
distribution unless explicitly compiled.)

Which of these, if any, do you use and why?


Gary Williams
MRC Rosalind Franklin Centre for Genomics Research
Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SB, UK
Tel: +44 1223 494522			Fax: +44 1223 494512
E-mail: gwilliam at rfcgr.mrc.ac.uk	Web: http://www.rfcgr.mrc.ac.uk

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