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This is the development version of zFPKM; for the stable release version, see zFPKM.

A suite of functions to facilitate zFPKM transformations

Bioconductor version: Development (3.20)

Perform the zFPKM transform on RNA-seq FPKM data. This algorithm is based on the publication by Hart et al., 2013 (Pubmed ID 24215113). Reference recommends using zFPKM > -3 to select expressed genes. Validated with encode open/closed chromosome data. Works well for gene level data using FPKM or TPM. Does not appear to calibrate well for transcript level data.

Author: Ron Ammar [aut, cre], John Thompson [aut]

Maintainer: Ron Ammar <ron.ammar at>

Citation (from within R, enter citation("zFPKM")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Introduction to zFPKM Transformation HTML R Script
Reference Manual PDF


biocViews FeatureExtraction, GeneExpression, ImmunoOncology, RNASeq, Software
Version 1.27.0
In Bioconductor since BioC 3.6 (R-3.4) (6.5 years)
License GPL-3 | file LICENSE
Depends R (>= 3.4.0)
Imports checkmate, dplyr, ggplot2, tidyr, SummarizedExperiment
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Suggests knitr, limma, edgeR, GEOquery, stringr, printr, rmarkdown
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Depends On Me
Imports Me
Suggests Me DGEobj.utils
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Follow Installation instructions to use this package in your R session.

Source Package zFPKM_1.27.0.tar.gz
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macOS Binary (x86_64) zFPKM_1.27.0.tgz
macOS Binary (arm64) zFPKM_1.27.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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