Instructions

TCS Pipline: General application to create template concensus sequences (TCS) for single or multiplexed pair-end Primer ID (PID) MiSeq sequencing.

DR Pipeline: Generate TCS and drug resistance report for using the HIV Drug Resistance Pipeline by the Swanstrom's lab.

Please cite TCS pipeline Version 1.3.8

Zhou S, Jones C, Mieczkowski P, Swanstrom R. 2015. Primer ID Validates Template Sampling Depth and Greatly Reduces the Error Rate of Next-Generation Sequencing of HIV-1 Genomic RNA Populations. J Virol 89:8540-55. https://www.ncbi.nlm.nih.gov/pubmed/26041299

Primer ID Sequencing

Primer ID Approach