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NCBI-Hackathons / Scan2CNV

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R package for CNV calling from Illumina idats #4

Closed ekarlins closed 7 years ago

ekarlins commented 7 years ago

One possibility is to create an R package. Like this one: http://bioconductor.org/packages/release/bioc/html/crlmm.html Or possibly using lower level functions in this: https://bioconductor.org/packages/release/bioc/html/illuminaio.html

We should make sure existing packages don't already do what we want, though.

ngiangre commented 7 years ago

From: Eric Karlins notifications@github.com Reply-To: NCBI-Hackathons/Global_Screening_Arrays reply@reply.github.com Date: Monday, March 20, 2017 at 11:01 AM To: NCBI-Hackathons/Global_Screening_Arrays Global_Screening_Arrays@noreply.github.com Cc: Subscribed subscribed@noreply.github.com Subject: [NCBI-Hackathons/Global_Screening_Arrays] R package for CNV calling from Illumina idats (#4)

One possibility is to create an R package. Like this one: http://bioconductor.org/packages/release/bioc/html/crlmm.html Or possibly using lower level functions in this: https://bioconductor.org/packages/release/bioc/html/illuminaio.html

We should make sure existing packages don't already do what we want, though.

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ekarlins commented 7 years ago

See Issue #7, which discusses an R approach using the package "gsrc". https://cran.r-project.org/web/packages/gsrc/index.html