chainCleaner statistics

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Associated diseases

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chainCleaner specifications


Unique identifier OMICS_15263
Name chainCleaner
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C, Java, Python
Computer skills Advanced
Stability Stable
Source code URL
Maintained Yes



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  • person_outline Michael Hiller <>

Publication for chainCleaner

chainCleaner in publication

PMCID: 5737078
PMID: 28645144
DOI: 10.1093/nar/gkx554

[…] the primate alignments used for the human-primate multiple alignment (ucsc 20-way) from the ucsc genome browser (). we computed the remaining 127 pairwise genome alignments and applied the chaincleaner method () to improve the specificity. the total runtime of these 127 genome alignments sums to ∼95,000 cpu hours (). the final 144-vertebrate alignment, obtained by multiz (), includes […]

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chainCleaner institution(s)
Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany; Max Planck Institute for the Physics of Complex Systems, Dresden, Germany
chainCleaner funding source(s)
This work has been supported by the Max Planck Society.

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