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  1. Peak calling is a computational method used to identify areas in a genome that have been enriched with aligned reads as a consequence of performing a ChIP-sequencing or MeDIP-seq experiment. These areas are those where a protein interacts with DNA.
    en.wikipedia.org/wiki/Peak_calling
    en.wikipedia.org/wiki/Peak_calling
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  10. Calling peaks • Signac - Stuart Lab

    Aug 20, 2024 · In this tutorial, we demonstrate how to call peaks on a single-cell ATAC-seq dataset using MACS2. To use the peak calling functionality in Signac you will first need to install MACS2. This can be done using pip or conda, or …

  11. 9.6 Peak calling | Computational Genomics with R

    Sep 9, 2008 · Peak calling is a statistical procedure, which uses coverage properties of ChIP and Input samples to find regions which are enriched due to protein binding. The procedure requires mapped reads, and outputs a set of …

  12. ATAC-seq and gene regulatory network analysis - GitHub

    RNA-seq data will be used to annotate peak regions exclusively to genes expressed in the condition analysed (during DiffBind differential accessibility analysis). If RNA_fastq_dirs is empty, peaks will be annotated using all genes …