Baca: The Baca dataset
In LaraUrban/covRNA: Multivariate Analysis of Transcriptomic Data
Description
Usage
Format
Value
Source
References
Examples
Description
The integrated Baca dataset contains the ExpressionSet Baca; its assayData contains deep sequenced RNA-Seq data of Bacillus anthracis under four stress conditions (with four replicates per stress conditions). The raw sequence reads derive from Passalacqua et al. (2012) and are availaible at Gene Expression Omnibus (GEO, accession number GSE36506). We have already mapped, counted and DESeq2 normalised these counts. The phenoData assigns the stress condition, i.e. ctrl, cold, salt and alcohol stress, to the samples. The featureData contains COG annotations of the genes.
Usage
1
Format
ExpressionSet
Value
ExpressionSet
Source
GEO GSE36506
References
Passalacqua, K. D., Varadarajan, A., Weist, C., Ondov, B. D., Byrd, B. et al. (2012) Strand-Specific RNA-Seq Reveals Ordered Patterns of Sense and Antisense Transcription in Bacillus anthracis. PLoS ONE, 7(8):e43350.
Examples
1
2
3
4
LaraUrban/covRNA documentation built on May 8, 2019, 5:48 p.m.
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Description Usage Format Value Source References Examples
Description
The integrated Baca dataset contains the ExpressionSet Baca; its assayData contains deep sequenced RNA-Seq data of Bacillus anthracis under four stress conditions (with four replicates per stress conditions). The raw sequence reads derive from Passalacqua et al. (2012) and are availaible at Gene Expression Omnibus (GEO, accession number GSE36506). We have already mapped, counted and DESeq2 normalised these counts. The phenoData assigns the stress condition, i.e. ctrl, cold, salt and alcohol stress, to the samples. The featureData contains COG annotations of the genes.
Usage
1 |
Format
ExpressionSet
Value
ExpressionSet
Source
GEO GSE36506
References
Passalacqua, K. D., Varadarajan, A., Weist, C., Ondov, B. D., Byrd, B. et al. (2012) Strand-Specific RNA-Seq Reveals Ordered Patterns of Sense and Antisense Transcription in Bacillus anthracis. PLoS ONE, 7(8):e43350.
Examples
1 2 3 4 |
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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