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Visualises RNA-modification data with transcript-feature metagene plots (Guitar GuitarPlot with 5'UTR / CDS / 3'UTR scaling; MetaPlotR; deepTools `computeMatrix scale-regions`), peak-centred heatmaps (ComplexHeatmap; deepTools plotHeatmap), IP-vs-input paired browser tracks (bigWig of log2 IP/inp...
ChIP-seq quality control metrics including FRiP (Fraction of Reads in Peaks), cross-correlation analysis (NSC/RSC), library complexity, and IDR (Irreproducibility Discovery Rate) for replicate concordance. Use to assess experiment quality before downstream analysis. Use when assessing ChIP-seq da...
Create metagene plots and browser tracks for RNA modification data. Use when visualizing m6A distribution patterns around genomic features like stop codons.
ChIP-seq peak calling and downstream interpretation with MACS3, signal track export, annotation, motif analysis, and differential binding review.
Aligns and QCs methylated-RNA-immunoprecipitation (MeRIP / m6A-seq) IP and input libraries using STAR or HISAT2 splice-aware mapping, samtools sort/index, IP/input matched-pair tracking, antibody-lot metadata recording, replicate concordance via deepTools multiBamSummary + plotCorrelation, IP enr...
Analyzes CUT&RUN (Skene Henikoff 2017) and CUT&Tag (Kaya-Okur 2019) chromatin profiling data. Handles SEACR vs MACS2 peak calling (with the btaf375 2025 benchmark guidance), pA-MNase vs pA-Tn5 vs pAG-Tn5 chimera differences, E. coli spike-in carryover normalization, IgG-only control logic (no inp...
Agent skill for Researcher, Data Scientist, published by GPTomics. Project details and file access are provided by the publisher.
Agent skill for Researcher, Data Scientist, Business Intelligence Analyst, published by Rudson-Oliveira. Project details and file access are provided by the publisher.
Agent skill for Researcher, Clinical Research, Data Scientist, published by FridrichMethod. Project details and file access are provided by the publisher.
Agent skill for Researcher, Data Scientist, Clinical Research, published by FridrichMethod. Project details and file access are provided by the publisher.
Agent skill for Researcher, Data Scientist, published by FridrichMethod. Project details and file access are provided by the publisher.
Agent skill for Researcher, Data Scientist, published by FridrichMethod. Project details and file access are provided by the publisher.
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