bPeaks statistics

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Citations per year

Number of citations per year for the bioinformatics software tool bPeaks
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Tool usage distribution map

This map represents all the scientific publications referring to bPeaks per scientific context
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bPeaks specifications

Information


Unique identifier OMICS_18991
Name bPeaks
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 3.0, GNU General Public License version 2.0
Computer skills Advanced
Version 1.2
Stability No
Source code URL https://cran.r-project.org/src/contrib/bPeaks_1.2.tar.gz
Maintained No

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Documentation


Additional information


http://bpeaks.gene-networks.net/datafiles/bPeaks-manual.pdf

Publication for bPeaks

bPeaks citations

 (2)
library_books

The CCAAT Binding Complex Controls Respiratory Gene Expression and Iron Homeostasis in Candida Glabrata

2017
Sci Rep
PMCID: 5471220
PMID: 28615656
DOI: 10.1038/s41598-017-03750-5

[…] equencing of the IPs, Input DNAs and mock IPs samples and primary data analyses (quality controls and mapping of the reads) were performed as described previously. Peak calling was performed with the bpeaks software, using both the Input DNA and the mock IP as references. For peak calling using the Input DNA as reference, the bpeaks parameters were T1 = 1.9, T2 = 6, T3 = 1, T4 = 0.7. For peak call […]

library_books

A Network of Paralogous Stress Response Transcription Factors in the Human Pathogen Candida glabrata

2016
Front Microbiol
PMCID: 4860858
PMID: 27242683
DOI: 10.3389/fmicb.2016.00645

[…] eplicate averaged before the peak calling step, except for CgYap5 for which one of the two replicates had poor read coverage and was not used for further analyses. Peak calling was performed with the bpeaks software (Merhej et al., ), using both the Input DNA and the mock IP as references. For peak calling using the Input DNA as reference, the bpeaks parameters were T1 = 2, T2 = 2, T3 = 1.5, T4 = […]


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bPeaks institution(s)
Sorbonne Universités, UPMC University of Paris 06, UMR 7238, Laboratoire de Biologie Computationnelle et Quantitative, Paris, France; CNRS, UMR 7238, Laboratoire de Biologie Computationnelle et Quantitative, Paris, France; Ecole Normale Supérieure, Institut de Biologie de l’ENS (IBENS), Inserm U1024 and CNRS UMR 8197, Paris, France; Sorbonne Universités, UPMC University of Paris 06, UMR 7622, Laboratoire de Biologie du Développement, Paris, France; CNRS, UMR 7622, Laboratoire de Biologie du Développement, Paris, France; Institut Jacques Monod, CNRS UMR 7592, University of Paris Diderot, Paris, France
bPeaks funding source(s)
Supported by the STRUDYEV project of the French National Research Agency (ANR; Grant No. ANRJCJC-2010); by an ANR post-doctoral fellow hired in the frame of the STRUDYEV project; the Genomic Paris Centre IBENS platform, member of ‘France Génomique’ (Grant No. ANR10-INBS-09-08); by the program ‘Investissements d’Avenir’ launched by the French Government and implemented by the ANR (references ANR-10-LABX-54 MEMO LIFE and ANR-11-IDEX-0001-02 PSL* Research University).

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