smfishHmrf: Hidden Markov Random Field for Spatial Transcriptomic Data

Discovery of spatial patterns with Hidden Markov Random Field. This package is designed for spatial transcriptomic data and single molecule fluorescent in situ hybridization (FISH) data such as sequential fluorescence in situ hybridization (seqFISH) and multiplexed error-robust fluorescence in situ hybridization (MERFISH). The methods implemented in this package are described in Zhu et al. (2018) <doi:10.1038/nbt.4260>.

Version: 0.1
Depends: R (≥ 3.5.0), pracma (≥ 1.9.0), fs (≥ 1.2)
Imports: Rdpack
Published: 2020-11-03
DOI: 10.32614/CRAN.package.smfishHmrf
Author: Qian Zhu and Guo-Cheng Yuan
Maintainer: Qian Zhu <zqian at>
License: GPL-2 | GPL-3 [expanded from: GPL]
NeedsCompilation: yes
Materials: README ChangeLog
CRAN checks: smfishHmrf results


Reference manual: smfishHmrf.pdf


Package source: smfishHmrf_0.1.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): smfishHmrf_0.1.tgz, r-oldrel (arm64): smfishHmrf_0.1.tgz, r-release (x86_64): smfishHmrf_0.1.tgz, r-oldrel (x86_64): smfishHmrf_0.1.tgz


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