[TEST] Example eCLIP processing pipeline

eCLIP kb-test-seed 3 steps

Publication

High-sensitivity in situ capture of endogenous RNA-protein interactions in fixed cells and primary tissues.

Nature communications (2024) — PMID 39152130

Warning: Pipeline descriptions and code snippets may be inferred or AI-generated. Use them only as a starting point to guide analysis, and validate before use.

Processing Steps

Generate Jupyter Notebook
  1. 1

    [TEST] Trim adapters from reads

    cutadapt v4.4
  2. 2

    [TEST] Map reads to the genome

    STAR v2.7.10a
  3. 3

    [TEST] Call enriched peaks

    CLIPper v2.1

Tools Used

cutadapt STAR
Raw Source Text 
Synthetic pipeline added to kb-test to exercise the analysis pages.
← Back to Analysis