Learn R Programming

countfitteR

countfitteR is a web server based on Shiny technology for selecting the most appropriate count distribution in provided data sets.

Installation

countfitteR is available on CRAN.

install.packages("countfitteR")

However, you can also install the developmental version of countfitteR directly from GitHub

devtools::install_github("BioGenies/countfitteR")

Run countfitteR

To run countfitteR type the following command into an R console.

countfitteR::countfitteR_gui()

How to cite

  • Chilimoniuk, J., Gosiewska, A., Słowik, J., Weiss, R., Deckert, P.M., Rödiger, S., and Burdukiewicz, M. (2021). countfitteR: efficient selection of count distributions to assess DNA damage. Annals of Translational Medicine.
  • Chilimoniuk, J., Gosiewska, A., Słowik, J., Weiss, R., Deckert, P.M., Rödiger, S., Burdukiewicz, M., (2021). countfitteR: efficient selection of count distributions to assess DNA damage. Annals of Translational Medicine. https://doi.org/10.21037/atm-20-6363
@Article{,
  author = "Jarosław Chilimoniuk and Alicja Gosiewska and Jadwiga Słowik and Romano Weiss and P. Markus Deckert and Stefan Rödiger and Michał Burdukiewicz",
  title = "countfitteR: efficient selection of count distributions to assess DNA damage",
  year = 2021, 
  issn = {2305-5847},
  journal = "Annals of Translational Medicine",
  url = "https://atm.amegroups.org/article/view/63994/html",
}

@article{chilimoniuk_countfitter_2021,
	title = {{countfitteR}: efficient selection of count distributions to assess {DNA} damage},
	volume = {0},
	issn = {2305-5847, 2305-5839},
	shorttitle = {{countfitteR}},
	url = {https://atm.amegroups.org/article/view/63994/html},
	doi = {10.21037/atm-20-6363},
	abstract = {countfitteR: efficient selection of count distributions to assess DNA damage},
	language = {en},
	number = {0},
	urldate = {2021-03-15},
	journal = {Annals of Translational Medicine},
	author = {Chilimoniuk, Jarosław and Gosiewska, Alicja and Słowik, Jadwiga and Weiss, Romano and Deckert, P. Markus and Rödiger, Stefan and Burdukiewicz, Michał},
	month = mar,
	year = {2021},
	note = {Number: 0
Publisher: AME Publishing Company}
}

Copy Link

Version

Install

install.packages('countfitteR')

Monthly Downloads

213

Version

1.5

License

GPL-3

Issues

Pull Requests

Stars

Forks

Maintainer

Jaroslaw Chilimoniuk

Last Published

July 1st, 2025

Functions in countfitteR (1.5)

process_counts

Process counts
summary_fitlist

Summary of estimates
zinb

Zero-inflated negative binomial distrbution
decide

Make a decision based on the BIC value
zip

Zero-inflated Poisson distrbution
validate_counts

Validate data
sim_dat

Data created from simulation of NB Poiss
case_study_APC

Case study for APC dye
compare_fit

Compare fits
countfitteR-package

countfitteR - a framework for fitting count distributions in R
plot_fitcmp

plot_fitcmp
fit_counts

Fit counts to distributions
case_study_all

Case study with two fluorescent dyes
case_study

Short version of the case_study_FITC
case_study_FITC

Case study for FITC dye
select_model

Select the most appropriate model
countfitteR_gui

countfitteR Graphical User Interface