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DNPTrapper specifications

Information


Unique identifier OMICS_00881
Name DNPTrapper
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C++
License BSD 2-clause “Simplified” License
Computer skills Advanced
Version 1.0
Stability Stable
Maintained Yes

Versioning


No version available

Information


Unique identifier OMICS_00881
Name DNPTrapper
Interface Web user interface
Restrictions to use None
Programming languages C++
Computer skills Basic
Version 1.0
Stability Stable
Maintained Yes

Publication for DNPTrapper

DNPTrapper citations

 (3)
library_books

Computational Biology Methods and Their Application to the Comparative Genomics of Endocellular Symbiotic Bacteria of Insects

2009
PMCID: 3055744
PMID: 19495914
DOI: 10.1007/s12575-009-9004-1

[…] ng software are components of the aforementioned CONSED: sequence finishing tool [] and ReDit: shotgun assembly finishing aid [], also others include BaCCardI: validate and assist in finishing [] and DNPTrapper: analysis of complex regions and finishing tool []. Each of these software programs aim to make the editing process as user friendly as possible while offering the best possible combination […]

library_books

Genome assembly forensics: finding the elusive mis assembly

2008
Genome Biol
PMCID: 2397507
PMID: 18341692
DOI: 10.1186/gb-2008-9-3-r55

[…] istic is less sensitive to the variance of mate-pair sizes, and, therefore, much more sensitive in identifying true errors.An alternative approach to mis-assembly detection and resolution is taken by DNPTrapper []. This tool focuses on the heterogeneities between co-assembled reads to detect collapsed repeats, and provides an interface for manually separating the individual copies, using the Defin […]

library_books

Database of Trypanosoma cruzi repeated genes: 20 000 additional gene variants

2007
BMC Genomics
PMCID: 2204015
PMID: 17963481
DOI: 10.1186/1471-2164-8-391

[…] tical protein included in the analysis is an example of a gene that exists in many versions, with amino acid differences likely to alter protein function. We show here that our database combined with DNPTrapper makes it possible to efficiently study all these different gene families in detail. […]

Citations

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DNPTrapper institution(s)
Karolinska Institute, Center for Genomics and Bioinformatics, Stockholm, Sweden
DNPTrapper funding source(s)
This work was supported by grants from the Swedish Research Council and NIH (U01 AI045061).

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