Science Score: 13.0%
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○CITATION.cff file
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✓codemeta.json file
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○.zenodo.json file
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○DOI references
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○Academic publication links
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○Scientific vocabulary similarity
Low similarity (7.6%) to scientific vocabulary
Repository
Basic Info
- Host: GitHub
- Owner: frederikziebell
- License: apache-2.0
- Language: R
- Default Branch: main
- Size: 5.04 MB
Statistics
- Stars: 2
- Watchers: 1
- Forks: 1
- Open Issues: 0
- Releases: 0
Metadata Files
README.md
RNAseqQC
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The goal of RNAseqQC is to aid quality control of RNAseq data by providing a collection of data visualization functions. It allows identification of samples with unwanted biological or technical effects and to explore differential testing results.
Installation
You can install the released version of RNAseqQC from CRAN with:
r
install.packages("RNAseqQC")
Example
This is a basic example in which we make a library complexity plot and then compare some samples to the median reference of their respective group:
``` r library(RNAseqQC) library("DESeq2")
dds <- makeExampleDESeqDataSet(n=10000, m=30) plotlibrarycomplexity(dds) vsd <- vst(dds) dds$condition plotsampleMAs(vsd, group = "condition")[c(1,2,16,17)] ```
Owner
- Name: Frederik Ziebell
- Login: frederikziebell
- Kind: user
- Company: EMBL Heidelberg
- Repositories: 1
- Profile: https://github.com/frederikziebell
Cyclist / Mathematician / Computational Biologist
GitHub Events
Total
- Issues event: 2
- Issue comment event: 2
- Fork event: 1
Last Year
- Issues event: 2
- Issue comment event: 2
- Fork event: 1
Packages
- Total packages: 1
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Total downloads:
- cran 322 last-month
- Total docker downloads: 48
- Total dependent packages: 0
- Total dependent repositories: 0
- Total versions: 7
- Total maintainers: 1
cran.r-project.org: RNAseqQC
Quality Control for RNA-Seq Data
- Homepage: https://github.com/frederikziebell/RNAseqQC
- Documentation: http://cran.r-project.org/web/packages/RNAseqQC/RNAseqQC.pdf
- License: Apache License (≥ 2)
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Latest release: 0.2.1
published almost 2 years ago
Rankings
Maintainers (1)
Dependencies
- R >= 4.0 depends
- AnnotationFilter * imports
- AnnotationHub * imports
- BiocGenerics * imports
- ComplexHeatmap * imports
- DESeq2 * imports
- SummarizedExperiment * imports
- circlize * imports
- cowplot * imports
- dplyr * imports
- ensembldb * imports
- ggplot2 * imports
- ggpointdensity * imports
- ggrepel * imports
- grid * imports
- magrittr * imports
- matrixStats * imports
- patchwork * imports
- purrr * imports
- stringr * imports
- tibble * imports
- tidyr * imports
- tidyselect * imports
- apeglm * suggests
- gghighlight * suggests
- ggrastr * suggests
- knitr * suggests
- recount3 * suggests
- rmarkdown * suggests