R-parathyroidSE-1.0.4-4-rosa2016.1.i586.rpm


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Description

R-parathyroidSE - SummarizedExperiment for RNA-Seq of primary cultures of parathyroid tumors

Property Value
Distribution ROSA 2016.1
Repository ROSA Contrib i586
Package name R-parathyroidSE
Package version 1.0.4
Package release 4-rosa2016.1
Package architecture i586
Package type rpm
Installed size 21.30 MB
Download size 21.22 MB
Official Mirror mirror.rosalab.ru
This package provides SummarizedExperiment objects of read counts in genes
and exonic parts for paired-end RNA-Seq data from experiments on primary
cultures of parathyroid tumors.  The data were presented in the article
"Evidence of a Functional Estrogen Receptor in Parathyroid Adenomas" by
Haglund F, Ma R, Huss M, Sulaiman L, Lu M, Nilsson IL, Hoog A, Juhlin CC,
Hartman J, Larsson C, J Clin Endocrinol Metab. jc.2012-2484, Epub 2012 Sep
28, PMID: 23024189.  The sequencing was performed on tumor cultures from 4
patients at 2 time points over 3 conditions (DPN, OHT and control).  One
control sample was omitted by the paper authors due to low quality.  The
package vignette describes the creation of the object from raw sequencing
data provided by NCBI Gene Expression Omnibus under accession number
GSE37211.  The gene and exon features are the GRCh37 Ensembl annotations.

Alternatives

Package Version Architecture Repository
R-parathyroidSE-1.0.4-4-rosa2016.1.x86_64.rpm 1.0.4 x86_64 ROSA Contrib
R-parathyroidSE - - -

Requires

Name Value
R-BiocStyle -
R-GEOquery -
R-GenomicFeatures -
R-GenomicRanges -
R-Rsamtools -
R-SRAdb -

Provides

Name Value
R-parathyroidSE == 1.0.4-4:2016.1

Download

Type URL
Binary Package R-parathyroidSE-1.0.4-4-rosa2016.1.i586.rpm
Source Package R-parathyroidSE-1.0.4-4.src.rpm

Install Howto

  1. Enable ROSA Contrib repository on Install and Remove Software
  2. Update packages list:
    # urpmi.update -a
  3. Install R-parathyroidSE rpm package:
    # urpmi R-parathyroidSE

Files

Path
/usr/lib/R/library/parathyroidSE/DESCRIPTION
/usr/lib/R/library/parathyroidSE/INDEX
/usr/lib/R/library/parathyroidSE/NAMESPACE
/usr/lib/R/library/parathyroidSE/Meta/Rd.rds
/usr/lib/R/library/parathyroidSE/Meta/data.rds
/usr/lib/R/library/parathyroidSE/Meta/hsearch.rds
/usr/lib/R/library/parathyroidSE/Meta/links.rds
/usr/lib/R/library/parathyroidSE/Meta/nsInfo.rds
/usr/lib/R/library/parathyroidSE/Meta/package.rds
/usr/lib/R/library/parathyroidSE/Meta/vignette.rds
/usr/lib/R/library/parathyroidSE/data/datalist
/usr/lib/R/library/parathyroidSE/data/exonicParts.RData
/usr/lib/R/library/parathyroidSE/data/exonsByGene.RData
/usr/lib/R/library/parathyroidSE/data/parathyroidExonsSE.RData
/usr/lib/R/library/parathyroidSE/data/parathyroidGenesSE.RData
/usr/lib/R/library/parathyroidSE/doc/index.html
/usr/lib/R/library/parathyroidSE/doc/parathyroidSE.R
/usr/lib/R/library/parathyroidSE/doc/parathyroidSE.Rnw
/usr/lib/R/library/parathyroidSE/doc/parathyroidSE.pdf
/usr/lib/R/library/parathyroidSE/extdata/GSE37211_series_matrix.txt
/usr/lib/R/library/parathyroidSE/extdata/SRR479052.bam
/usr/lib/R/library/parathyroidSE/extdata/SRR479053.bam
/usr/lib/R/library/parathyroidSE/extdata/SRR479054.bam
/usr/lib/R/library/parathyroidSE/extdata/conversion.txt
/usr/lib/R/library/parathyroidSE/help/AnIndex
/usr/lib/R/library/parathyroidSE/help/aliases.rds
/usr/lib/R/library/parathyroidSE/help/parathyroidSE.rdb
/usr/lib/R/library/parathyroidSE/help/parathyroidSE.rdx
/usr/lib/R/library/parathyroidSE/help/paths.rds
/usr/lib/R/library/parathyroidSE/html/00Index.html
/usr/lib/R/library/parathyroidSE/html/R.css
/usr/lib/R/library/parathyroidSE/html/exonsByGene.html
/usr/lib/R/library/parathyroidSE/html/parathyroidGenesSE.html

Changelog

2017-03-02 - Andrey Bondrov <andrey.bondrov@rosalab.ru> 1.0.4-4
- (0f3551c) MassBuild#1273: Increase release tag

See Also

Package Description
R-party-1.0.21-4-rosa2016.1.i586.rpm A Laboratory for Recursive Partytioning
R-partykit-1.1.1-3-rosa2016.1.i586.rpm A Toolkit for Recursive Partytioning
R-pasilla-0.2.20-4-rosa2016.1.i586.rpm Per-exon and per-gene read counts of RNA-seq samples of Pasilla knock-down
R-pasillaBamSubset-0.3.0-3-rosa2016.1.i586.rpm Subset of BAM files from "Pasilla" experiment
R-pbivnorm-0.5.1-4-rosa2016.1.i586.rpm Vectorized Bivariate Normal CDF
R-pbkrtest-0.4.6-1-rosa2016.1.i586.rpm Parametric bootstrap and Kenward Roger based methods for mixed model comparison
R-pcaPP-1.9.60-4-rosa2016.1.i586.rpm Robust PCA by Projection Pursuit
R-pec-2.4.9-3-rosa2016.1.i586.rpm Prediction Error Curves for Risk Prediction Models in Survival Analysis
R-penalized-0.9.45-3-rosa2016.1.i586.rpm L1 and L2 penalized estimation in GLMs and in the Cox model
R-pixmap-0.4.11-3-rosa2016.1.noarch.rpm Bitmap Images (``Pixel Maps'')
R-pkgDepTools-1.28.0-4-rosa2016.1.i586.rpm Package Dependency Tools
R-pkgKitten-0.1.3-3-rosa2016.1.noarch.rpm Create Simple Packages Which Do not Upset R Package Checks
R-playwith-0.9.54-5-rosa2016.1.i586.rpm A GUI for interactive plots using GTK+
R-plm-1.4.0-4-rosa2016.1.i586.rpm Linear Models for Panel Data
R-plotmo-1.3.3-4-rosa2016.1.noarch.rpm Plot a model's response while varying the values of the predictors
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