pmsignature specifications

Information


Unique identifier OMICS_13435
Name pmsignature
Alternative name Probabilistic Mutation signature
Interface Web user interface
Restrictions to use None
Input data Operative mutation signatures
Output data Mutation patterns
Programming languages C++
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Matthew Stephens <>

Information


Unique identifier OMICS_13435
Name pmsignature
Alternative name Probabilistic Mutation signature
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Mutation features are elements used for categorizing mutations such as 6 substitutions (C>A, C>G, C>T, T>A, T>C and T>G), 5’ and 3’ flanking bases (A, C, G and T) and transcription direction. Currently, pmsignature can accept following two formats of tab-delimited text file.
Operating system Unix/Linux, Mac OS, Windows
Programming languages C++, R
License GNU Affero General Public License version 3
Computer skills Advanced
Version 0.3.0
Stability Stable
Requirements ggplot2, dplyr, tidyr
Maintained Yes

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Maintainer


  • person_outline Matthew Stephens <>

pmsignature article

pmsignature institution(s)
Laboratory of DNA Information Analysis, Human Genome Center, Institute of Medical Science, The University of Tokyo, Tokyo, Japan; Department of Human Genetics, University of Chicago, Chicago, IL, USA; Department of Statistics, University of Chicago, Chicago, IL, USA
pmsignature funding source(s)
This work was supported by grants from Ministry of Education, Culture, Sports, Science and Technology, Japan (15K00398; 22134004 and 15H05912) and the grant from NIH (HG02585).

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