atacInferCnv - Call CNV from single cell ATAC-seq data based on InferCNV adaptation
The package prepares input scATAC-seq data and adapts for copy number variance profiling with InferCNV package usage. It has also various paramters to control the analysis (e.g. external normal reference usage, meta-cells, bin size, etc) and custom plot visualizations.
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epigeneticssequencingcopynumbervariationsinglecellimmunooncologycppjags
4.70 score 3 scripts 313 downloadsInTAD - Search for correlation between epigenetic signals and gene expression in TADs
The package is focused on the detection of correlation between expressed genes and selected epigenomic signals (i.e. enhancers obtained from ChIP-seq data) either within topologically associated domains (TADs) or between chromatin contact loop anchors. Various parameters can be controlled to investigate the influence of external factors and visualization plots are available for each analysis step.
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epigeneticssequencingchipseqrnaseqhicgeneexpressionimmunooncology
4.34 score 11 scripts 578 downloads