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  3. nucleosome_htseq.Rd
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migrated to GRanges, deleted everything RangedData

gthar authored on 14/02/2018 18:05:31
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man/nucleosome_htseq.Rd
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@@ -5,7 +5,7 @@
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 \alias{nucleosome_htseq}
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 \title{Example reads from high-troughtput sequencing nucleosome positioning
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 experiment}
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-\format{\code{RangedData} with the range of the reads and a data column with the
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+\format{\code{GRanges} with the range of the reads and a data column with the
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 strand information.}
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 \source{
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 Publication pending
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markdown on roxygen

gthar authored on 09/02/2018 17:02:16
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man/nucleosome_htseq.Rd
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@@ -5,8 +5,8 @@
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 \alias{nucleosome_htseq}
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 \title{Example reads from high-troughtput sequencing nucleosome positioning
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 experiment}
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-\format{\code{RangedData} with the range of the reads and a data column with
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-the strand information.}
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+\format{\code{RangedData} with the range of the reads and a data column with the
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+strand information.}
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 \source{
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 Publication pending
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 }
Browse code

moved to roxygen

gthar authored on 09/02/2018 11:04:02
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man/nucleosome_htseq.Rd
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@@ -1,28 +1,26 @@
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+% Generated by roxygen2: do not edit by hand
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+% Please edit documentation in R/sample_data.R
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+\docType{data}
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 \name{nucleosome_htseq}
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 \alias{nucleosome_htseq}
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-\docType{data}
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-\title{
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-Example reads from high-troughtput sequencing nucleosome positioning experiment
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+\title{Example reads from high-troughtput sequencing nucleosome positioning
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+experiment}
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+\format{\code{RangedData} with the range of the reads and a data column with
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+the strand information.}
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+\source{
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+Publication pending
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 }
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 \description{
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 Few reads from paired-ended MNase-seq experiment in S.cerevisiae where
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 mononucleosomes were sequenced
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 }
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-\usage{data(nucleosome_htseq)}
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-\format{
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-\code{RangedData} with the range of the reads and a data column with the strand
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-information.
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-}
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 \details{
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 This data is obtained from MNase digested nucleosomal DNA and sequenced with
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 Illumina platform. Paired-ended reads where mapped to SacCer1 genome using
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 Bowtie, and imported to R using the package \code{ShortRead} and paired ends
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 where merged into a single range.
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-Reads were sorted by chromosome and starting position and only a few reads from
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-the starting positions of chromosome 1 are presented.
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-}
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-\source{
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-Publication pending
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+Reads were sorted by chromosome and starting position and only a few reads
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+from the starting positions of chromosome 1 are presented.
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 }
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 \keyword{datasets}
Browse code

some biocheck notes and warnings fixed

gthar authored on 07/02/2018 15:07:38
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man/nucleosome_htseq.Rd
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@@ -2,21 +2,27 @@
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 \alias{nucleosome_htseq}
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 \docType{data}
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 \title{
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-	Example reads from high-troughtput sequencing nucleosome positioning experiment
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+Example reads from high-troughtput sequencing nucleosome positioning experiment
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 }
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 \description{
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-	Few reads from paired-ended MNase-seq experiment in S.cerevisiae where mononucleosomes were sequenced
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+Few reads from paired-ended MNase-seq experiment in S.cerevisiae where
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+mononucleosomes were sequenced
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 }
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 \usage{data(nucleosome_htseq)}
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 \format{
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-	\code{RangedData} with the range of the reads and a data column with the strand information.
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+\code{RangedData} with the range of the reads and a data column with the strand
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+information.
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 }
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 \details{
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-	This data is obtained from MNase digested nucleosomal DNA and sequenced with Illumina platform. Paired-ended reads where mapped to SacCer1 genome using Bowtie, and imported to R using the package \code{ShortRead} and paired ends where merged into a single range.
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+This data is obtained from MNase digested nucleosomal DNA and sequenced with
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+Illumina platform. Paired-ended reads where mapped to SacCer1 genome using
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+Bowtie, and imported to R using the package \code{ShortRead} and paired ends
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+where merged into a single range.
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-	Reads were sorted by chromosome and starting position and only a few reads from the starting positions of chromosome 1 are presented.
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+Reads were sorted by chromosome and starting position and only a few reads from
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+the starting positions of chromosome 1 are presented.
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 }
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 \source{
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-	Publication pending
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+Publication pending
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 }
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 \keyword{datasets}
Browse code

file structure changed

rilla authored on 02/03/2015 10:28:25
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man/nucleosome_htseq.Rd
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new file mode 100644
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+\name{nucleosome_htseq}
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+\alias{nucleosome_htseq}
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+\docType{data}
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+\title{
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+	Example reads from high-troughtput sequencing nucleosome positioning experiment
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+}
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+\description{
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+	Few reads from paired-ended MNase-seq experiment in S.cerevisiae where mononucleosomes were sequenced
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+}
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+\usage{data(nucleosome_htseq)}
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+\format{
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+	\code{RangedData} with the range of the reads and a data column with the strand information.
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+}
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+\details{
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+	This data is obtained from MNase digested nucleosomal DNA and sequenced with Illumina platform. Paired-ended reads where mapped to SacCer1 genome using Bowtie, and imported to R using the package \code{ShortRead} and paired ends where merged into a single range.
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+
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+	Reads were sorted by chromosome and starting position and only a few reads from the starting positions of chromosome 1 are presented.
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+}
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+\source{
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+	Publication pending
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+}
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+\keyword{datasets}