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Description
The HiFive package, a set of tools for handling HiC and 5C data. This includes managing data from mapped reads, either in bam, mat, or raw formats. All stages use hdf5 dictionaries for fast access and minimal memory and storage usage. This package includes methods for normalizing data from either HiC or 5C experiments at the fragment-end, or fragment level resolution, respectively. Once normalized, data can be used for plotting, binning, or other statistical tests within the package very quickly. This package makes extensive use of the h5py and numpy packages. In addition, if mpi4py is installed, several methods are compatible with parallelization, including HiC normalization and heatmap generation.
Repository
https://github.com/bxlab/hifive
Project Slug
bxlab-hifive
Last Built
5 years, 4 months ago passed
Maintainers
Home Page
https://github.com/bxlab/hifive
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Tags
5c, 5-c, chromatin, hic, hi-c, interactions
Short URLs
bxlab-hifive.readthedocs.io
bxlab-hifive.rtfd.io
Default Version
latest
'latest' Version
master