quantro - A test for when to use quantile normalization
A data-driven test for the assumptions of quantile normalization using raw data such as objects that inherit eSets (e.g. ExpressionSet, MethylSet). Group level information about each sample (such as Tumor / Normal status) must also be provided because the test assesses if there are global differences in the distributions between the user-defined groups.
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normalizationpreprocessingmultiplecomparisonmicroarraysequencing
6.92 score 2 dependents 233 scripts 867 downloadsmethylCC - Estimate the cell composition of whole blood in DNA methylation samples
A tool to estimate the cell composition of DNA methylation whole blood sample measured on any platform technology (microarray and sequencing).
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microarraysequencingdnamethylationmethylationarraymethylseqwholegenome
6.68 score 18 stars 22 scripts 596 downloadsTENxPBMCData - PBMC data from 10X Genomics
Single-cell RNA-seq data for on PBMC cells, generated by 10X Genomics.
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sequencingdatarnaseqdataexpressiondataexperimenthubexperimentdatasinglecelldatadatapkg
5.73 score 5 dependents 177 scriptsqsmooth - Smooth quantile normalization
Smooth quantile normalization is a generalization of quantile normalization, which is average of the two types of assumptions about the data generation process: quantile normalization and quantile normalization between groups.
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normalizationpreprocessingmultiplecomparisonmicroarraysequencingrnaseqbatcheffect
4.95 score 1 dependents 1 scripts 528 downloadsbodymapRat - Experimental dataset from the rat BodyMap project
This package contains a SummarizedExperiment from the Yu et al. (2013) paper that performed the rat BodyMap across 11 organs and 4 developmental stages. Raw FASTQ files were downloaded and mapped using STAR. Data is available on ExperimentHub as a data package.
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sequencingdatarnaseqdataexpressiondataexperimentdataexperimenthubdatapkg
4.15 score 14 scripts