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A suite of functions to facilitate zFPKM transformations

Bioconductor version: Release (3.18)

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 bms.com>

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


To install this package, start R (version "4.3") and enter:

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


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 1.24.0
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
System Requirements
URL https://github.com/ronammar/zFPKM/
Bug Reports https://github.com/ronammar/zFPKM/issues
See More
Suggests knitr, limma, edgeR, GEOquery, stringr, printr, rmarkdown
Linking To
Depends On Me
Imports Me
Suggests Me DGEobj.utils
Links To Me
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package zFPKM_1.24.0.tar.gz
Windows Binary zFPKM_1.24.0.zip
macOS Binary (x86_64) zFPKM_1.24.0.tgz
macOS Binary (arm64) zFPKM_1.24.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/zFPKM
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/zFPKM
Bioc Package Browser https://code.bioconductor.org/browse/zFPKM/
Package Short Url https://bioconductor.org/packages/zFPKM/
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