OCplus protocols

View OCplus computational protocol

OCplus statistics

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Associated diseases

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OCplus specifications


Unique identifier OMICS_01999
Name OCplus
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU Lesser General Public License version 3.0
Computer skills Advanced
Version 1.54.0
Stability Stable
stats, graphics, grDevices, R(>=2.1.0), multtest(>=1.7.3), akima
Maintained Yes


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OCplus in pipeline

PMCID: 2270833
PMID: 18261226
DOI: 10.1186/1471-2164-9-73

[…] for each of the differential testing procedures. the filtered data-sets were subsequently subjected to t-tests with multiple testing correction and control of the false discovery rate (fdr) using ocplus package [] available under bioconductor []. by comparing the plotted number of differentially expressed genes at various fdr levels, corresponding threshold values for the maximum acceptable […]

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OCplus in publications

PMCID: 5721467
PMID: 29216821
DOI: 10.1186/s12860-017-0150-z

[…] a maximum injection of 140 ms. single and unassigned charge states were rejected from precursor selection., we performed a differential gene expression analysis, based on affymetrix data, with the ocplus package provided in r software ( http://www.r-project.org/ ). [] we conducted three pairwise comparisons, including fls1 versus nlsdel, fls1 versus v, and nlsdel versus v. we compared signals […]

PMCID: 5760233
PMID: 28638001
DOI: 10.2463/mrms.mp.2017-0044

[…] clustering was performed using ward’s method. we explored which texture features significantly differed between gbm and pcnsl with unpaired t statistics-based multiple comparisons, provided by the ocplus package under the control of false discovery rate (fdr) < 0.05 (yudi pawitan and alexander ploner [2016]. ocplus: operating characteristics plus sample size and local fdr for microarray […]

PMCID: 4269343
PMID: 25361981
DOI: 10.1093/annonc/mdu498

[…] see definition above) and relapse site., differential gene expression according to short- or long-term post-relapse patient survival (as defined above) was analyzed using the open-source r package ocplus 1.22.0 []. for additional information, see supplementary methods, available at annals of oncology online., all data preparation and analysis were done using sas version 9.3 and r version […]

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