ToxCast Data Pipeline Overview

The tcpl package was developed to process high-throughput and high-content screening data generated by the ToxCast program. ToxCast is screening thousands of chemicals with hundreds of assays coming from numerous and diverse biochemical and cell-based technology platforms. The diverse data, received in heterogeneous formats from numerous vendors, are transformed to a standard computable format and loaded into the tcpl database by vendor-specific R scripts. Once data is loaded into the database, ToxCast utilizes the generalized processing functions provided in this package to process, normalize, model, qualify, flag, inspect, and visualize the data. While developed primarily for ToxCast, we have attempted to make the tcpl package generally applicable to chemical-screening community.

tcpl包（tcpl package）旨在处理ToxCast项目生成的高通量筛选与高内涵筛选数据。ToxCast项目依托众多多样化的生化及基于细胞的技术平台，采用数百种检测方法对数千种化学物质开展筛选。从多家供应商处获取的异构格式数据，将通过针对各供应商编写的专属R脚本转换为标准化可计算格式，并导入tcpl数据库（tcpl database）。待数据完成数据库导入后，ToxCast项目会借助该工具包提供的通用处理函数，对数据进行处理、归一化、建模、质量校验、标记、检视与可视化。尽管该工具包最初为ToxCast项目开发，但我们已尽可能使其能够广泛适用于化学筛选领域。