p-Creode specifications

Information


Unique identifier OMICS_24841
Name p-Creode
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Python
License Apache License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

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Versioning


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Maintainer


  • person_outline Ken Lau

Publication for p-Creode

p-Creode citation

library_books

Single Cell Computational Strategies for Lineage Reconstruction in Tissue Systems

2018
PMCID: 5924749
PMID: 29713661
DOI: 10.1016/j.jcmgh.2018.01.023

[…] y lies in the current inability to compare overall topologic structures of graph outputs with both differing nodes and edges, which are produced over multiple different runs on the same data set. The p-Creode algorithm is unique in this respect by leveraging an ensemble of N resampled topologies to lessen the effects of overfitting. p-Creode uses a unique hierarchical placement strategy for genera […]

p-Creode institution(s)
Epithelial Biology Center, Vanderbilt University Medical Center, Nashville, TN, USA; Program in Chemical and Physical Biology, Vanderbilt University School of Medicine, Nashville, TN, USA; Department of Cell and Developmental Biology, Vanderbilt University School of Medicine, Nashville, TN, USA; Department of Medicine, Vanderbilt University Medical Center, Nashville, TN, USA; Department of Biomedical Informatics, Vanderbilt University School of Medicine, Nashville, TN, USA; Center for Quantitative Sciences, Vanderbilt University School of Medicine, Nashville, TN, USA; Life Sciences Division, GE Global Research, Niskayuna, NY, USA; Veterans Affairs Medical Center, Tennessee Valley Healthcare System, Nashville, TN, USA
p-Creode funding source(s)
Supported by NIDDK (R01DK103831), NCI (U01CA215798), an Innovator Award from the AACR-Landon Foundation (15-20-27-LAUK), a CCFA CDA (308221), a pilot project grant from NIDDK (P30DK058404), NIDDK (R01DK103831), a grant from NICHD (T32HD007502) a pre-doctoral grant from NIGMS (F31GM120940), a training grant from NCI (R25CA092043), a NCI (R01CA174377), a Vanderbilt GI Special Programs of Research Excellence (P50CA095103).

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