Genome-wide extraction of real-valued signals hidden in noisy multisample HTS data
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Apr 5, 2026 - Python
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cut-and-run
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Step-by-step instructions and Snakemake pipeline for processing Cut&Run data
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Sep 8, 2023 - Python
A modular, production-ready Snakemake pipeline for CUT&RUN epigenomic analysis — featuring E. coli spike-in normalization, SEACR peak calling, fragment size analysis, and comprehensive QC reporting. Designed following ENCODE and nf-core best practices.
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Apr 11, 2026 - Python
qPCR Plate Planner is a browser-based tool to streamline the design, execution, and analysis of qPCR experiments. Supporting chromatin profiling, gene expression, and comparative assays, it integrates automated ΔΔCt calculations, statistical testing (t-test/ANOVA), and intelligent outlier detection to deliver standardized data quantification
epigenetics workflow-automation experimental-design qpcr-analysis gene-quantification master-mix plate-layout-design cut-and-run workflow-automation-tools fold-change-analysis chip-qpcr 384-well ddct-analysis chromatin-enrichment
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Mar 4, 2026 - HTML
cccTeqy is a ChIP-seq, CUT&RUN, and CUT&Tag processing engine.
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Dec 1, 2025 - Shell
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