NBregDE2: Bayesian Negative Binomial regression for differential...
In siamakz/BNBR: Bayesian Negative Binomial Regression For Differential Expression Analysis
Description
Bayesian Negative Binomial regression for differential expression analysis of
sequencing count data with confounding factors
Usage
1
2
NBregDE2(counts, X, cond, idx.cond, Burnin = 1000L, Collections = 1000L,
PGTruncation = 60L, randtry = 2017)
Arguments
counts
a matrix of counts, rows are corresponding to genes and columns
are corresponding to samples.
X
design matrix
cond
the index of covariate corresponding to the main treatment
idx.cond
a vector of covariate indices that the effect of their combination
on gene expression is under study
Burnin
Number of burn-in iterations in MCMC
Collections
Number of collected posterior samples after burn-in
PGTruncation
the truncation level used for genrating random numbers
from Polya-Gamma distribution
randtry
to be used for set.seed()
siamakz/BNBR documentation built on Oct. 21, 2019, 5:50 a.m.
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Description
Bayesian Negative Binomial regression for differential expression analysis of sequencing count data with confounding factors
Usage
1 2 | NBregDE2(counts, X, cond, idx.cond, Burnin = 1000L, Collections = 1000L,
PGTruncation = 60L, randtry = 2017)
|
Arguments
counts |
a matrix of counts, rows are corresponding to genes and columns are corresponding to samples. |
X |
design matrix |
cond |
the index of covariate corresponding to the main treatment |
idx.cond |
a vector of covariate indices that the effect of their combination on gene expression is under study |
Burnin |
Number of burn-in iterations in MCMC |
Collections |
Number of collected posterior samples after burn-in |
PGTruncation |
the truncation level used for genrating random numbers from Polya-Gamma distribution |
randtry |
to be used for set.seed() |
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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