Query regarding matchprobes package

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sneha patil ▴ 220

@sneha-patil-3903

Last seen 10.2 years ago

hello I just want to kno y matchprobes package is present in 2.6/2.7 version of bioconductor packages but not in 2.12 bioconductor packages?? Regards, Sneha [[alternative HTML version deleted]]

matchprobes matchprobes • 1.0k views

ADD COMMENT • link updated 13.7 years ago by Wolfgang Huber ★ 13k • written 13.7 years ago by sneha patil ▴ 220

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Wolfgang Huber ★ 13k

@wolfgang-huber-3550

Last seen 3 months ago

EMBL European Molecular Biology Laborat…

Sneha it's been superseded by Biostrings. Wolfgang Il Mar/19/11 6:13 AM, sneha patil ha scritto: > hello > > I just want to kno y matchprobes package is present in 2.6/2.7 version of > bioconductor packages but not in 2.12 bioconductor packages?? > > > Regards, > Sneha > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor -- Wolfgang Huber EMBL http://www.embl.de/research/units/genome_biology/huber

ADD COMMENT • link 13.7 years ago Wolfgang Huber ★ 13k

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This makes sense since Biostrings is vastly more powerful. But what is going to happen with the probe packages, where the central piece of data is a class that - as far as I recall - is being defined in matchprobes (although - again from memory - the class really provides nothing else than a print method). Are they going to be replaced with a more "modern" class or are they just being scaled back to being data.frames or are these packages also being phased out (which I would consider very unfortunate)? Kasper On Sat, Mar 19, 2011 at 4:04 AM, Wolfgang Huber <whuber at="" embl.de=""> wrote: > Sneha > > it's been superseded by Biostrings. > > ? ? ? ?Wolfgang > > Il Mar/19/11 6:13 AM, sneha patil ha scritto: >> >> hello >> >> I just want to kno y matchprobes package is present in 2.6/2.7 version of >> bioconductor packages but not in 2.12 bioconductor packages?? >> >> >> Regards, >> Sneha >> >> ? ? ? ?[[alternative HTML version deleted]] >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor at r-project.org >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor > > -- > > > Wolfgang Huber > EMBL > http://www.embl.de/research/units/genome_biology/huber > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor >

ADD REPLY • link 13.7 years ago Kasper Daniel Hansen ★ 6.5k

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Hi Kasper the makeProbePackage function is now in AnnotationDbi, and the probe packages are of course still being produced, see http://www.bioconductor.org/help/bioc-views/devel/data/annotation The transition already happened a couple of releases ago, and was apparently transparent to you - as intended :) Best wishes Wolfgang Il Mar/19/11 4:35 PM, Kasper Daniel Hansen ha scritto: > This makes sense since Biostrings is vastly more powerful. But what > is going to happen with the probe packages, where the central piece of > data is a class that - as far as I recall - is being defined in > matchprobes (although - again from memory - the class really provides > nothing else than a print method). Are they going to be replaced with > a more "modern" class or are they just being scaled back to being > data.frames or are these packages also being phased out (which I would > consider very unfortunate)? > > Kasper > > On Sat, Mar 19, 2011 at 4:04 AM, Wolfgang Huber<whuber at="" embl.de=""> wrote: >> Sneha >> >> it's been superseded by Biostrings. >> >> Wolfgang >> >> Il Mar/19/11 6:13 AM, sneha patil ha scritto: >>> >>> hello >>> >>> I just want to kno y matchprobes package is present in 2.6/2.7 version of >>> bioconductor packages but not in 2.12 bioconductor packages?? >>> >>> >>> Regards, >>> Sneha >>> >>> [[alternative HTML version deleted]] >>> >>> _______________________________________________ >>> Bioconductor mailing list >>> Bioconductor at r-project.org >>> https://stat.ethz.ch/mailman/listinfo/bioconductor >>> Search the archives: >>> http://news.gmane.org/gmane.science.biology.informatics.conductor >> >> -- >> >> >> Wolfgang Huber >> EMBL >> http://www.embl.de/research/units/genome_biology/huber >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor at r-project.org >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor >> -- Wolfgang Huber EMBL http://www.embl.de/research/units/genome_biology/huber

ADD REPLY • link 13.7 years ago Wolfgang Huber ★ 13k

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