MUFFIN
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How to use MUFFIN
Installation
Install optional R dependencies
Loading your data
Setting normalization factors
Removing unused variables
Count Modelling and transformation
Feature Selection
Dimensionnality reduction
Downstream analyses
Examples
Starter : Clustering of 3k PBMCs sequenced by 10X scRNA-seq
Paper example : 10k PBMCs sequenced by 10X scATAC-seq
Paper example : H3K4Me3 occupancy in immune cells via ChIP-seq
Paper example : Landscape of open chromatin in cancers via ATAC-seq (TCGA)
Paper example : Clustering of 10k PBMCs sequenced by 10X scRNA-seq
API reference
muffin.load
muffin.tools
muffin.great
muffin.peakMerge
muffin.plots
MUFFIN
Overview: module code
All modules for which code is available
muffin.great
muffin.load
muffin.peakMerge
muffin.plots
muffin.tools
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