seqOutBias

Vignette

by Guertin Lab


A step-by-step guide to correcting sequence biases resulting from enzymatic sequence preferences using seqOutBias.

Contents

  1. Processing of DNase-seq data from ENCODE
  2. seqOutBias to generate scaled bigWig files
  3. Correction of Tn5 sequence bias from ATAC-seq data
  4. Correction of MNase sequence bias from MNase-seq data
  5. Scaling Tissue Accessible Chromatin (TACh) Benzonase and Cyanase Digested DNA
  6. PRO-seq T4 RNA ligase correction and analysis
  7. k-mer mask optimization
  8. Characterizing the enzymatic clean up and ligation sequence bias
  9. References