preprint · bioRxiv (Cold Spring Harbor Laboratory) · 2023

hipFG: High-throughput harmonization and integration pipeline for functional genomics data

Jeffrey Cifello, Pavel P. Kuksa, Naveensri Saravanan, Otto Valladares, Yuk Yee Leung, Li‐San Wang

Cited by 0Open access

Abstract

Preparing functional genomic (FG) data with diverse assay types and file formats for integration into analysis workflows that interpret genome-wide association and other studies is a significant and time-consuming challenge. Here we introduce hipFG, an automatically customized pipeline for efficient and scalable normalization of heterogenous FG data collections into standardized, indexed, rapidly searchable analysis-ready datasets while accounting for FG datatypes (e.g., chromatin interactions, genomic intervals, quantitative trait loci).

Cite this paper

APA 7

Cifello, J., Kuksa, P. P., Saravanan, N., Valladares, O., Leung, Y. Y., & Wang, L. (2023). hipFG: High-throughput harmonization and integration pipeline for functional genomics data. bioRxiv (Cold Spring Harbor Laboratory). https://doi.org/10.1101/2023.04.21.537695

MLA 9

Cifello, Jeffrey, et al. “hipFG: High-throughput harmonization and integration pipeline for functional genomics data.” bioRxiv (Cold Spring Harbor Laboratory), 2023, https://doi.org/10.1101/2023.04.21.537695.

Chicago

Cifello, Jeffrey, Pavel P. Kuksa, Naveensri Saravanan, Otto Valladares, Yuk Yee Leung, and Li‐San Wang. 2023. “hipFG: High-throughput harmonization and integration pipeline for functional genomics data.” bioRxiv (Cold Spring Harbor Laboratory). https://doi.org/10.1101/2023.04.21.537695.

Harvard

Cifello, J. et al. (2023) ‘hipFG: High-throughput harmonization and integration pipeline for functional genomics data’, bioRxiv (Cold Spring Harbor Laboratory). Available at: https://doi.org/10.1101/2023.04.21.537695.

BibTeX

@misc{cifello2023hipfg,
  title = {{hipFG: High-throughput harmonization and integration pipeline for functional genomics data}},
  author = {Cifello, Jeffrey and Kuksa, Pavel P. and Saravanan, Naveensri and Valladares, Otto and Leung, Yuk Yee and Wang, Li‐San},
  journal = {bioRxiv (Cold Spring Harbor Laboratory)},
  year = {2023},
  doi = {10.1101/2023.04.21.537695}
}

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