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FIRM  

Flexible Integration of Single-Cell RNA-Seq Data
View on CRAN: Click here


Download and install FIRM package within the R console
Install from CRAN:
install.packages("FIRM")

Install from Github:
library("remotes")
install_github("cran/FIRM")

Install by package version:
library("remotes")
install_version("FIRM", "0.1.2")



Attach the package and use:
library("FIRM")
Maintained by
Jingsi Ming
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2026-02-19
Latest Update: 2026-02-19
Description:
Provides functions for the flexible integration of heterogeneous scRNA-seq datasets across multiple tissue types, platforms, and experimental batches. Implements the method described in Ming (2022) <doi:10.1093/bib/bbac167>. The package incorporates modified 'C++' source code from the 'flashpca' library (Abraham, 2014-2016 <https://github.com/gabraham/flashpca>) for efficient principal component analysis, and the 'Spectra' library (Qiu, 2016-2025) for large-scale eigenvalue and singular value decomposition; see 'inst/COPYRIGHTS' for details on third-party code.
How to cite:
Jingsi Ming (2026). FIRM: Flexible Integration of Single-Cell RNA-Seq Data. R package version 0.1.2, https://cran.r-project.org/web/packages/FIRM. Accessed 21 Aug. 2026.
Previous versions and publish date:
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Complete documentation for FIRM
Functions, R codes and Examples using the FIRM R package
Full FIRM package functions and examples
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