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deconf specifications


Unique identifier OMICS_21800
Name deconf
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Windows
Programming languages R
Computer skills Advanced
Stability Stable
Maintained Yes


No version available


  • person_outline Dirk Repsilber

Publication for deconf

deconf citations


Atomistic scale investigation of cation ordering and phase stability in Cs substituted Ba1.33Zn1.33Ti6.67O16, Ba1.33Ga2.66Ti5.67O16 and Ba1.33Al2.66Ti5.33O16 hollandite

Sci Rep
PMCID: 5864749
PMID: 29567965
DOI: 10.1038/s41598-018-22982-7

[…] t energetic terms are highlighted for the evaluation of ordering and stability in the hollandite system − 1. Change in total energy for systems with the same composition, but differing configuration (ΔEconf), 2. Enthalpy of formation for a given configuration based on formation from the simple oxides (ΔHfoxides), and 3. Enthalpy of mixing across a given binary solid solution series, where the end- […]


Computational de novo discovery of distinguishing genes for biological processes and cell types in complex tissues

PLoS One
PMCID: 5832224
PMID: 29494600
DOI: 10.1371/journal.pone.0193067
call_split See protocol

[…] as input to determine sample composition. The performance of CellDistinguisher coupled with ssKL or with our in-house partial deconvolution tool was tested and compared to lsfit, qprog, cs-lsfit and deconf. […]


An evaluation of methods correcting for cell type heterogeneity in DNA methylation studies

Genome Biol
PMCID: 4855979
PMID: 27142380
DOI: 10.1186/s13059-016-0935-y

[…] ig. 4In this scenario, NFP is less variable among the different adjustment methods, with the exception of the reference-free method. Once again, the reference-based and SVA methods do quite well, but Deconf and CellCDec also perform well in this scenario. Power is lower in all methods compared to the other simulation scenarios, with the exception of the reference-free method, though the high NFP f […]


The meta epigenomic structure of purified human stem cell populations is defined at cis regulatory sequences

Nat Commun
PMCID: 4300104
PMID: 25327398
DOI: 10.1038/ncomms6195

[…] resence of subpopulations within our dataset but did not interpret the specific values within W', rather we focused on the difference between the actual and simulated datasets.Utilizing the R package deconf, we varied the matrix rank and estimated the matrices W' and H' such that: (2)V′≈W′H′. The distance between the original dataset V and V' was calculated as the Frobenius norm: (3)‖V′−V‖F2=F. Th […]

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deconf institution(s)
Department of Genetics and Biometry, Research Institute for the Biology of Farm Animals, Dummerstorf, Germany; Bioinformatics Chair, Institute for Biochemistry and Biology at the University of Potsdam, Potsdam-Golm, Germany; Molecular Biology and Human Genetics, University of Stellenbosch, Cape Town, South Africa; Department of Immunology, Max-Planck-Institute for Infection Biology, Berlin, Germany; Department of Immunology, Bernhard-Nocht-Institute for Tropical Medicine, Hamburg, Germany
deconf funding source(s)
Supported by the Grand Challenges in Global Health Project: Grant Number 37772.

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