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Cooler specifications


Unique identifier OMICS_17162
Name Cooler
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
License BSD 3-clause “New” or “Revised” License
Computer skills Advanced
Version 0.6.6
Stability Stable
Python, ibhdf5 and Python packages (numpy, scipy, pandas, h5py)
Maintained Yes




No version available


Cooler citations


A mechanism of cohesin‐dependent loop extrusion organizes zygotic genome architecture

PMCID: 5730859
PMID: 29217590
DOI: 10.15252/embj.201798083

[…] d pooled data is given in Tables and . Briefly, reads were mapped to the mm9 genome using hiclib (which applies iterative mapping with bowtie2) and then filtered. These data were then converted into Cooler files with heatmaps at different resolutions for downstream analysis.We applied the same methods for quantification of different features of spatial organization of the genome as done previousl […]


Bat Flight and Zoonotic Viruses

PMCID: 4012789
PMID: 24750692
DOI: 10.3201/eid2005.130539

[…] needed to determine the relationship between torpor, host competence as related to within-host viral persistence and population viral perpetuation processes.” Viral replication is dampened under the cooler host body temperatures that prevail during prolonged torpor, and hypothermia has been considered to be a host strategy that is adaptive against pathogens (). Luis et al. () hypothesized that th […]


Population Differentiation and Species Formation in the Deep Sea: The Potential Role of Environmental Gradients and Depth

PLoS One
PMCID: 3788136
PMID: 24098590
DOI: 10.1371/journal.pone.0077594

[…] high potential for mixing and transport in the sampled region [], making it unlikely that the DWBC is an effective barrier to gene flow. It is possible that larvae transported in SCVs from relatively cooler abyssal depths into warmer rise/slope depths or vice-versa face environmental challenges (see below) reducing or eliminating population connectivity through phenotype-environment mismatches (se […]


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