PT  - JOURNAL ARTICLE
AU  - Jeongbin Park
AU  - Liam H. Childs
AU  - Matthias Schlesner
AU  - Roland Eils
TI  - HTSlib-js: Developer toolkit for a client-side JavaScript interface for HTSlib
AID  - 10.1101/397935
DP  - 2018 Jan 01
TA  - bioRxiv
PG  - 397935
4099  - http://biorxiv.org/content/early/2018/08/27/397935.short
4100  - http://biorxiv.org/content/early/2018/08/27/397935.full
AB  - Background An increasing number of bioinformatics tools are developed in JavaScript to provide an interactive visual interface to users. However, there are no tools yet that enable fast client-side analysis of large, high-throughput sequencing file formats, such as BAM and VCF files.Results We present HTSlib-js, an asm.js-based JavaScript wrapper for HTSlib, the de facto standard for processing BAM and VCF files. HTSlib-js exploits recent technological advances in web browser engines that dramatically increase the performance of browser-based tools to enable swift processing of files in the aforementioned formats. HTSlib-js enables quick development of JavaScript-based applications that include processing of aligned sequence reads and variant calling data.Conclusions HTSlib-js constitutes a toolkit for developers to easily write fast, accessible, browser-based applications that place an emphasis on data visualization, interactivity and privacy. Real-world examples demonstrate the capabilities of HTSlib-js and serve as guide for own developments.SAMSequence alignment mapBAMBinary alignment mapVCFVariant call formatBCFBinary variant call formatHTSHigh-throughput sequencingSDKSoftware development kitCIGARConcise idiosyncratic gapped alignment reportHTMLHypertext markup languageAPIApplication programming interfaceGiBGibibyteGNU LGPLGNU lesser general public licence