论文标题
Pepsirf + Qiime 2：用于自动化的，可再现的高度层次血清学数据的软件工具
PepSIRF + QIIME 2: software tools for automated, reproducible analysis of highly-multiplexed serology data
论文作者
论文摘要
PEPSIRF是一个基于命令行的开源软件包，可促进来自高度多形的血清学分析（例如Pepseq或Phip-Seq）的数据分析。它在其当前版本（v1.5.0）中具有九个单独的模块：demux，info，subjoin，norm，bin，bin，zscore，enrich，link和deconv。这些模块可以共同用于进行分析，从消除原始高通量测序数据到识别富集肽的分析。 Qiime 2是一个开源，社区开发的，基于插件的生物信息学平台，侧重于数据和分析透明度。 Qiime 2的功能包括数据出处的集成和自动跟踪，语义类型系统以及对许多类型的用户界面的内置支持。在这里，我们描述了三个新的Qiime 2插件，这些插件允许用户在Qiime 2环境中进行PEPSIRF分析，并以两种关键方式扩展PepSirf的核心功能：1）启用交互式可视化和2）启用包括多个PEPSIRF模块的分析管道的自动化。
PepSIRF is a command-line, module-based open-source software package that facilitates the analysis of data from highly-multiplexed serology assays (e.g., PepSeq or PhIP-Seq). It has nine separate modules in its current release (v1.5.0): demux, info, subjoin, norm, bin, zscore, enrich, link, and deconv. These modules can be used together to conduct analyses ranging from demultiplexing raw high-throughput sequencing data to the identification of enriched peptides. QIIME 2 is an open-source, community-developed and plugin-based bioinformatics platform that focuses on data and analytical transparency. QIIME 2's features include integrated and automatic tracking of data provenance, a semantic type system, and built-in support for many types of user interfaces. Here, we describe three new QIIME 2 plugins that allow users to conduct PepSIRF analyses within the QIIME 2 environment and extend the core functionality of PepSIRF in two key ways: 1) enabling generation of interactive visualizations and 2) enabling automation of analysis pipelines that include multiple PepSIRF modules.
