cutandrun

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Analysis pipeline for CUT&RUN and CUT&TAG experiments that includes QC, support for spike-ins, IgG controls, peak calling and downstream analysis.

workflow pipeline nextflow nf-core cutandrun-seq cutandrun cutandtag-seq cutandtag

An R package for classifying, comparing, and investigating sub-region structural changes of (super) enhancers (or other large domains).

CUT&RUN-Flow, A Nextflow pipeline for QC, tag trimming, normalization, and peak calling for data from CUT&RUN experiments.

genomics nextflow chip-seq-pipelines cutandrun-seq peak-calling cutandrun cutrun

bioinformatics snakemake pipeline cutandrun

Peak calling optimization via real time results assessment and interactive parameter adjustment.

shiny chip-seq atac-seq macs macs2 peak-calling cutandrun cutandtag genrich peak-callers sicer2

Articles and Computational Methods for CUT&RUN and CUT&Tag

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