Analysis pipeline of adenine methylation single-molecule footprinting (aSMF) experiments with PacBio sequencing. Based on the code by Stergachis et al. (2020)
A conda installation with:
The C. elegans reference genome file (ce11 or later).
Take a look at the headers of each of the following scripts, modify them according to your data and run in order:
01_PB_aligner.sh02_ZMW_coords_per_chrom.sh03_Kinetics.sh
BED file that can be opened in a genome viewer showing the 6mA marks over a region.
Average methylation profile over a region.
