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Reusable instructions for compatible AI agents.
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Preprocess CLIP-seq reads (eCLIP, iCLIP, iCLIP2, iCLIP3, irCLIP, PAR-CLIP, FLASH) with protocol-specific UMI extraction, adapter trimming, length filtering, and post-alignment PCR-duplicate collapse. Use when raw CLIP FASTQ must be turned into deduplicated, crosslink-preserving BAM input for peak...
Preprocess CLIP-seq data including adapter trimming, UMI extraction, and PCR duplicate removal. Use when preparing raw CLIP, iCLIP, or eCLIP reads for peak calling.
Extract, process, and deduplicate reads using Unique Molecular Identifiers (UMIs) with umi_tools. Use when library prep includes UMIs and accurate molecule counting is needed, such as in single-cell RNA-seq, low-input RNA-seq, or targeted sequencing to distinguish PCR from biological duplicates.
End-to-end CLIP-seq pipeline from FASTQ to ENCODE-compliant binding sites, single-nucleotide crosslink maps, annotation, motifs, and (optionally) differential binding. Use when running the full Yeo lab eCLIP / iCLIP / iCLIP2 / iCLIP3 / irCLIP / PAR-CLIP analysis with SMInput control, protocol-spe...
Agent skill for Researcher, Clinical Research, Data Scientist, published by Rudson-Oliveira. Project details and file access are provided by the publisher.
Agent skill for Researcher, Clinical Research, Data Scientist, published by Rudson-Oliveira. Project details and file access are provided by the publisher.
Agent skill for Researcher, Clinical Research, Data Scientist, 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, Clinical Research, Data Scientist, published by FridrichMethod. Project details and file access are provided by the publisher.
Agent skill for Researcher, Data Scientist, published by majiayu000. 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.
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