data-dds: Gene expression data
In MalgorzataOles/BloodCancerMultiOmics2017: "Drug-perturbation-based stratification of blood cancer" by Dietrich S, Oles M, Lu J et al. - experimental data and complete analysis
dds R Documentation
Gene expression data
Description
The object contains the gene expression data after differential
gene expression analysis performed with DESeq2 R/Bioconductor package.
The preprocessing of the RNA-Seq data included
read alignment to the human reference genome (GRCh 37.1 / hg 19;
STAR version 2.3.0), and read counting done with htseq-count
(default mode union).
Usage
dds
Format
"DESeqDataSet" object with 136 CLL samples and 63677 features.
Author(s)
Sascha Dietrich
References
Love MI, Huber W, and Anders S. Moderated estimation of fold change
and dispersion for RNA-seq data with DESeq2.
Genome Biol. 2014;15(12):550
Dobin A, Davis CA, Schlesinger F, Drenkow J, Zaleski C,
Jha S, Batut P, Chaisson M, and Gingeras TR. STAR: ultrafast universal
RNA-seq aligner. Bioinformatics. 2013;29(1):15-21
Anders S, Pyl PT, and Huber W. HTSeq–a Python framework to work
with high-throughput sequencing data. Bioinformatics. 2015;31(2):166-9
MalgorzataOles/BloodCancerMultiOmics2017 documentation built on March 29, 2024, 2:29 p.m.
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| dds | R Documentation |
Gene expression data
Description
The object contains the gene expression data after differential gene expression analysis performed with DESeq2 R/Bioconductor package. The preprocessing of the RNA-Seq data included read alignment to the human reference genome (GRCh 37.1 / hg 19; STAR version 2.3.0), and read counting done with htseq-count (default mode union).
Usage
dds
Format
"DESeqDataSet" object with 136 CLL samples and 63677 features.
Author(s)
Sascha Dietrich
References
Love MI, Huber W, and Anders S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 2014;15(12):550
Dobin A, Davis CA, Schlesinger F, Drenkow J, Zaleski C, Jha S, Batut P, Chaisson M, and Gingeras TR. STAR: ultrafast universal RNA-seq aligner. Bioinformatics. 2013;29(1):15-21
Anders S, Pyl PT, and Huber W. HTSeq–a Python framework to work with high-throughput sequencing data. Bioinformatics. 2015;31(2):166-9
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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