Data analysis pipeline for SAM using UMI clustering. Copyright © 2024 The Trustees of Columbia University in the City of New York. All Rights Reserved.
This pipeline require pre-installing longread_umi conda environment as in
Karst SM, Ziels RM, Kirkegaard RH, Sorensen EA, McDonald D, Zhu Q, et al. High-accuracy long-read amplicon sequences using unique molecular identifiers with Nanopore or PacBio sequencing. Nature methods. 2021;18(2):165-9. Epub 2021/01/13. doi: 10.1038/s41592-020-01041-y. PubMed PMID: 33432244.
Before running the pipeline, replace primer sequences to the actual sequences.