Installation instructions for hicream

In hicream: HI-C diffeREntial Analysis Method

knitr::opts_chunk$set(echo = TRUE)

AWK

hicream requires the awk command to be installed on your system. If you are using a Unix-based system, awk is likely already installed. If you are using Windows a cywgin version of awk is searched for by the package. You can install awk by downloading the Gawk package from the GNU website: https://www.gnu.org/software/gawk/.

More about AWK: https://en.wikipedia.org/wiki/AWK

Python dependencies

hicream requires the python command to be installed on your system (>=3.9). Additional Python packages (scikit-learn, kneebow, numpy, and pandas) are also required.

More about used Python packages:

• scikit-learn: https://scikit-learn.org/stable/
• kneebow: https://pypi.org/project/kneebow/
• pandas: https://pandas.pydata.org/

To install Python modules, please check "Installing Python modules" in Python documentation. With pip:

pip install scikit-learn
pip install kneebow
pip install pandas
pip install numpy

Session information

sessionInfo()

hicream documentation built on Aug. 8, 2025, 7:26 p.m.