R-parathyroidSE-1.0.4-1-rosa2012.1.i586.rpm


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Description

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

Distribution: ROSA 2012.1
Repository: ROSA Contrib Updates i586
Package name: R-parathyroidSE
Package version: 1.0.4
Package release: 1-rosa2012.1
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

Provides

  • R-parathyroidSE == 1.0.4-1:2012.1

    Install Howto

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

    Files

    • /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

    2014-03-31 - Denis Silakov <denis.silakov@rosalab.ru> 1.0.4-1 + Revision: 1b55039 - Disable debug

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