noise: Estimation of Intrinsic and Extrinsic Noise from Single-Cell Data

Functions to calculate estimates of intrinsic and extrinsic noise from the two-reporter single-cell experiment, as in Elowitz, M. B., A. J. Levine, E. D. Siggia, and P. S. Swain (2002) Stochastic gene expression in a single cell. Science, 297, 1183-1186. Functions implement multiple estimators developed for unbiasedness or min Mean Squared Error (MSE) in Fu, A. Q. and Pachter, L. (2016). Estimating intrinsic and extrinsic noise from single-cell gene expression measurements. <http://arxiv.org/abs/1601.03334>.

Author
Audrey Qiuyan Fu and Lior Pachter
Date of publication
2016-07-29 00:45:54
Maintainer
Audrey Q. Fu <audreyqyfu@gmail.com>
License
GPL (>= 2)
Version
1.0

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Man pages

computeExtrinsicNoise
Compute estimates of the extrinsic noise.
computeExtrinsicNoiseKnownCor
Compute estimates of the extrinsic noise using a known...
computeIntrinsicNoise
Compute estimates of the intrinsic noise.
computeNoiseForSubset
Select a random subset of data for noise estimation.
elowitz_data
Expression of reporter genes in the D22 and M22 E. coli cells...
noise-package
\Sexpr[results=rd,stage=build]{tools:::Rd_package_title("noise")}
simulateSC
Simulate single-cell expression levels of two reporters
yang_nl10
Expression of reporter genes in the NL010 E. coli cells from...

Files in this package

noise
noise/NAMESPACE
noise/data
noise/data/yang_nl10.rda
noise/data/elowitz_data.rda
noise/R
noise/R/computeExtrinsicNoiseKnownCor.R
noise/R/simulateSC.R
noise/R/computeIntrinsicNoise.R
noise/R/computeExtrinsicNoise.R
noise/R/computeNoiseForSubset.R
noise/MD5
noise/build
noise/build/partial.rdb
noise/DESCRIPTION
noise/man
noise/man/computeExtrinsicNoise.Rd
noise/man/computeExtrinsicNoiseKnownCor.Rd
noise/man/computeIntrinsicNoise.Rd
noise/man/elowitz_data.Rd
noise/man/yang_nl10.Rd
noise/man/noise-package.Rd
noise/man/computeNoiseForSubset.Rd
noise/man/simulateSC.Rd