BatchEval Pipeline: batch effect evaluation workflow for multiple datasets joint analysis.

ABSTRACT: As genomic sequencing technology continues to advance, it becomes increasingly important to perform joint analyses of multiple datasets of transcriptomics. However, batch effect presents challenges for dataset integration, such as sequencing data measured on different platforms, and datasets collected at different times. Here, we report the development of BatchEval Pipeline, a batch effect workflow used to evaluate batch effect on dataset integration. The BatchEval Pipeline generates a comprehensive report, which consists of a series of HTML pages for assessment findings, including a main page, a raw dataset evaluation page, and several built-in methods evaluation pages. The main page exhibits basic information of the integrated datasets, a comprehensive score of batch effect, and the most

SUBMITTER: Zhang C 

PROVIDER: S-EPMC10905258 | biostudies-literature | 2024

REPOSITORIES: biostudies-literature