seqOutBias

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