checkMyIndex: a web-based R/Shiny interface for choosing compatible sequencing indexes

Hugo Varet; Jean-Yves Coppée

doi:10.1093/bioinformatics/bty706

checkMyIndex: a web-based R/Shiny interface for choosing compatible sequencing indexes

Bioinformatics. 2019 Mar 1;35(5):901-902. doi: 10.1093/bioinformatics/bty706.

Authors

Hugo Varet^{1

2}, Jean-Yves Coppée²

Affiliations

¹ Center of Bioinformatics, Biostatistics and Integrative Biology, Institut Pasteur - Bioinformatics and Biostatistics Hub - C3BI, USR 3756 IP CNRS, Paris, France.
² Center for Technological Resources and Research, Institut Pasteur - Transcriptome and Epigenome Platform - Biomics Pole - C2RT, Paris, France.

Abstract

Summary: When sequencing several libraries simultaneously, the selection of compatible combinations of indexes is critical for ensuring that the sequencer will be able to decipher the short, sample-specific barcodes added to each fragment. However, researchers have few tools to help them choose optimal indexes. Here, we present checkMyIndex, an online R/Shiny application that facilitates the selection of the right indexes as a function of the experimental constraints.

Availability and implementation: checkMyIndex is available free of charge at https://checkmyindex.pasteur.fr as an online, web-based R/Shiny application. The source code is available on GitHub at https://github.com/PF2-pasteur-fr/checkMyIndex.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Internet*
Sequence Analysis
Software*