mola

Multi-modal Observations from Long- and short-read Alignments

mola links single-nucleotide mismatches to read alignments from all kinds of RNA sequencing data:

• bulk short-read paired-/single-end RNA-seq
• bulk long-read RNA-seq
• single-cell short-read RNA-seq
• single-cell long-read RNA-seq

then implement probabilistic modeling for:

• classification of sequencing errors, RNA editing and germline SNPs
• haplotype phasing
• somatic mutation detection

Installation

Install from source for now:

git clone git@github.com:chilampoon/mola.git
cd mola
pip install -e .

Use Cases

Application	Data modality	Publication
A-to-I editing site calling from HyperTRIBE	Bulk short-read RNA-seq	Inherited resilience to clonal hematopoiesis by modifying stem cell RNA regulation (2026)

Documentation

Long-form documentation lives at docs/.