
BIOCONDUCTOR . ORG {
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Title:
Bioconductor - dreamlet
Description:
Recent advances in single cell/nucleus transcriptomic technology has enabled collection of cohort-scale datasets to study cell type specific gene expression differences associated disease state, stimulus, and genetic regulation. The scale of these data, complex study designs, and low read count per cell mean that characterizing cell type specific molecular mechanisms requires a user-frieldly, purpose-build analytical framework. We have developed the dreamlet package that applies a pseudobulk approach and fits a regression model for each gene and cell cluster to test differential expression across individuals associated with a trait of interest. Use of precision-weighted linear mixed models enables accounting for repeated measures study designs, high dimensional batch effects, and varying sequencing depth or observed cells per biosample.
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Keywords {🔍}
bioconductor, package, dreamlet, cell, packages, version, html, script, expression, analysis, single, study, release, source, differential, transcriptomics, datasets, designs, hoffman, enter, install, reports, binary, learn, developers, started, software, complex, doi, type, specific, gene, data, regression, effects, sequencing, gabriel, largescale, installation, start, documentation, system, rnaseq, mashr, details, bioc, stats, url, macos, dreamlettgz,
Topics {✒️}
org/packages/dreamlet source repository purpose-build analytical framework io/dreamlet bug reports single cell rna-seq joint galaxy/bioconductor conference bioconductor release tgz source repository source package complex study designs cohort-scale datasets test differential expression release //code bioconductor support site script error handling script reference manual dreamlet package low read count gz windows binary zip macos binary tgz macos binary script mashr analysis package installed gabriel hoffman [aut git clone https varying sequencing depth details biocviews /diseaseneurogenomics/dreamlet/issues linear effects stats system requirements cell cluster packages package started install dreamlet analysis transcriptomics version script testing bioconductor //bioconductor cell download stats hoffman ge org registration open recent advances enabled collection disease state genetic regulation scale user-frieldly
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