chainCleaner statistics

info info

Citations per year

Number of citations per year for the bioinformatics software tool chainCleaner

Tool usage distribution map

info info

Associated diseases


Popular tool citations

chevron_left Whole genome alignment chevron_right
Want to access the full stats & trends on this tool?

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




No version available



  • person_outline Michael Hiller

Publication for chainCleaner

chainCleaner citation


Increased alignment sensitivity improves the usage of genome alignments for comparative gene annotation

Nucleic Acids Res
PMCID: 5737078
PMID: 28645144
DOI: 10.1093/nar/gkx554

[…] downloaded 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 73 […]

Want to access the full list of citations?
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.

chainCleaner reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review chainCleaner