Single Molecule Footprinting Analysis in Python.
Project description
smftools
A tool for processing raw sequencing data for single molecule footprinting experiments at single genomic loci.
Dependencies
The following tools need to be installed and configured:
- Dorado -> For standard/modified basecalling and alignment. Can be attained by downloading and configuring nanopore MinKnow software.
- Samtools -> For working with SAM/BAM files
- Minimap2 -> The aligner used by Dorado
- Modkit -> Extracting summary statistics and read level methylation calls from modified BAM files
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