AD-Enhancer-Remodelling
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AD-Enhancer-Remodelling
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AD_GRN
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ChIP-seq workflow
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peak_calling_macs2
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.DS_Store
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GREAT_analysis_kmeans_cluster_with_JIASF.R
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Psoriasis_Graves_SLE_JIASF_consensus_peaks_de.R
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Psoriasis_SLE_Graves_JIA_making_consensuspeakset.R
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README.md
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functions_used.R
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kmeans_clustering_all_diseases.R
README.md
Remodelling of enhancer landscape in autoimmune diseases
The scripts used in the analysis with their description are tabulated as follows:
| Description | Folder/Scripts |
|---|---|
| ChIP-seq analysis | ChIP-seq workflow |
| Functions used in the analysis | functions_used.R |
| Peak Calling | peak_calling_macs2 |
| Generating Consensus peakset | Psoriasis_SLE_Graves_JIA_making_consensuspeakset.R |
| Differential Peak analysis | Psoriasis_Graves_SLE_JIASF_consensus_peaks_de.R |
| K-means clustering of consensus peakset | kmeans_clustering_all_diseases.R |
| GREAT enrichment analysis | GREAT_analysis_kmeans_cluster_with_JIASF.R |
| Generating AD GRN | AD_GRN |