Tag: NicheNetr
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How to Analyze Single-Cell RNA-seq Data – Complete Beginner’s Guide Part 10: Cell-Cell Communication Analysis Using NicheNet
Introduction: Taking Cell-Cell Communication Analysis to the Next Level Picking Up Where Part 9 Left Off In Part 9 of this series, we used CellChat to map the full landscape of immune cell communication in our periodontitis dataset. CellChat answered a sweeping question: Who is talking to whom, through which signaling pathways, and how does
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Recent Posts
- How to Analyze Single-Cell RNA-seq Data — Complete Beginner’s Guide Part 13: RNA Velocity Analysis with scVelo
- How to Analyze Single-Cell RNA-seq Data – Complete Beginner’s Guide Part 12: Build Gene Co-expression Networks Using hdWGCNA
- How to Analyze Single-Cell RNA-seq Data — Complete Beginner’s Guide Part 11: Copy Number Variation Analysis Using CopyKAT
- No More Command-Line Only: Run Jupyter Lab, RStudio, and VS Code Interactively in Your Browser on Any HPC Cluster with Pixi
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Alternative Splicing Analysis ATAC-seq BAM ChIP-seq chromatin accessibility CNV DESeq2 Differential Expression edgeR FASTQ GATK Mutect2 gene expression heatmap HOMER HPC Isoform limma MACS2 MAF miRNA miRNA-seq MSigDB Normalization peak calling RNA-seq SLURM somatic mutations Transcript VCF whole genome sequencing