NucTools protocols

View NucTools computational protocol

NucTools statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Nucleosome positioning chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

NucTools specifications

Information


Unique identifier OMICS_16871
Name NucTools
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Input data A raw DNA read.
Input format BED
Operating system Unix/Linux
Programming languages Perl
License GNU General Public License version 3.0
Computer skills Medium
Version 2.0
Stability Stable
Maintained Yes

Download


Versioning


Add your version

Maintainer


  • person_outline Yevhen Vainshtein <>

Publication for NucTools

NucTools in pipeline

2017
PMCID: 5403151
PMID: 28406749
DOI: 10.1080/19491034.2017.1295201

[…] 160 bp, 159 bp and 159 bp, reflecting a moderate chromatin digestion (in a strongly digested chromatin dna fragments are closer to the 147bp nucleosome dna length). mapped reads were processed using nuctools to generate genome-wide nucleosome occupancy landscapes, extract individual genomic regions and calculate nrl, as described previously. aggregate nucleosome occupancy profiles around genomic […]


To access a full list of citations, you will need to upgrade to our premium service.

NucTools in publication

PMCID: 5403151
PMID: 28406749
DOI: 10.1080/19491034.2017.1295201

[…] and nucleosome repositioning take place upon hl-60/s4 cells differentiation into granulocyte (ra-treated) or macrophage (tpa-treated) cell forms. using a “sliding window” approach with the help of nuctools software, we defined 1000-bp genomic regions which are characterized by significant loss or gain of nucleosome occupancy upon differentiation with ra or tpa (see methods). we have identified […]


To access a full list of publications, you will need to upgrade to our premium service.

NucTools institution(s)
Functional Genomics Group, Fraunhofer Institute for Interfacial Engineering and Biotechnology IGB, Stuttgart, Germany; Research Group Genome Organization & Function, German Cancer Research Center (DKFZ) and Bioquant, Heidelberg, Germany; School of Biological Sciences, University of Essex, Wivenhoe Park, Colchester, UK
NucTools funding source(s)
Supported by the intramural grant “Developing a software suite for the analysis of epigenetic regulation from high-throughput sequencing data” within the cross-topic program [email protected] at the German Cancer Research Center, as well as the Wellcome Trust grant 200733/Z/16/Z.

NucTools reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review NucTools