TAPS+ Data Analysis Guide

This technical note outlines data analysis approaches for interpreting sequencing data generated with the Watchmaker DNA Library Prep Kit with TAPS+. It compares supported pipelines and tools, highlighting considerations unique to the TAPS+ positive-readout chemistry.

• How to analyze TAPS+ data using standard methylation pipelines, including when to choose workflows optimized for CpG-only methylation or those that support multi-context analysis
• How positive-readout chemistry maintains sequence complexity, and enables combined methylation calling and variant detection from the same library
• Key considerations for TAPS+ analysis, including trimming strategy, mbias evaluation, strandedness handling, variant masking, and workflow choices that ensure accurate methylation calls and reliable multimodal results