Dear all, there was a DNASuffixArray function call to C code (biostring.c) in package Biostrings 1.1.1 (BioConductor 1.6) Biostrings 1.4.0 (BioConductor 1.7) Biostrings 2.0.3 (BioConductor 1.8) Biostrings 2.2.1 (BioConductor 1.9) but then, still a function call but no C code anymore, in package Biostrings 2.4.8 (BioConductor 2.0) Biostrings 2.6.6 (BioConductor 2.1) Biostrings 2.8.18 (BioConductor 2.2) Biostrings 2.9.66 (BioConductor 2.3) Can someone please briefly explain what happened to DNASuffixArray? Beside being interested in using it, I would also like to properly cite this implementation in a forthcoming book and thus, need to be sure about any details. Thanks, Gabriel

The guy who is most on top of this is undoubtedly Herve Pages from FHCRC, since he wrote it. He is on vacation until Sep. 1st. Of course, there may be other people with details on this. Kasper On Aug 29, 2008, at 10:35 AM, Gabriel Valiente wrote: > Dear all, > > there was a DNASuffixArray function call to C code (biostring.c) in > package > > Biostrings 1.1.1 (BioConductor 1.6) > Biostrings 1.4.0 (BioConductor 1.7) > Biostrings 2.0.3 (BioConductor 1.8) > Biostrings 2.2.1 (BioConductor 1.9) > > but then, still a function call but no C code anymore, in package > > Biostrings 2.4.8 (BioConductor 2.0) > Biostrings 2.6.6 (BioConductor 2.1) > Biostrings 2.8.18 (BioConductor 2.2) > Biostrings 2.9.66 (BioConductor 2.3) > > Can someone please briefly explain what happened to DNASuffixArray? > Beside being interested in using it, I would also like to properly > cite this implementation in a forthcoming book and thus, need to be > sure about any details. Thanks, > > Gabriel > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor