Package: noise 1.0.2
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. Statistical Applications in Genetics and Molecular Biology, 15(6), 447-471.
Authors:
noise_1.0.2.tar.gz
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noise_1.0.2.tgz(r-4.4-any)noise_1.0.2.tgz(r-4.3-any)
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noise_1.0.2.tgz(r-4.4-emscripten)noise_1.0.2.tgz(r-4.3-emscripten)
noise.pdf |noise.html✨
noise/json (API)
| # Install 'noise' in R: |
| install.packages('noise', repos = c('https://audreyqyfu.r-universe.dev', 'https://cloud.r-project.org')) |
- elowitz_data - Expression of reporter genes in the D22 and M22 E. coli cells from Elowitz et al (2002).
- yang_nl10 - Expression of reporter genes in the NL010 E. coli cells from Yang et al (2014).
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 9 months agofrom:3f8a41c4db. Checks:OK: 6 ERROR: 1. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 27 2024 |
| R-4.5-win | OK | Oct 27 2024 |
| R-4.5-linux | ERROR | Oct 27 2024 |
| R-4.4-win | OK | Oct 27 2024 |
| R-4.4-mac | OK | Oct 27 2024 |
| R-4.3-win | OK | Oct 27 2024 |
| R-4.3-mac | OK | Oct 27 2024 |
Exports:computeExtrinsicNoisecomputeExtrinsicNoiseKnownCorcomputeIntrinsicNoisecomputeNoiseForSubsetsimulateSC
Dependencies:preprocessCore
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Compute estimates of the extrinsic noise. | computeExtrinsicNoise |
| Compute estimates of the extrinsic noise using a known correlation in the min-MSE estimator. | computeExtrinsicNoiseKnownCor |
| Compute estimates of the intrinsic noise. | computeIntrinsicNoise |
| Select a random subset of data for noise estimation. | computeNoiseForSubset |
| Expression of reporter genes in the D22 and M22 E. coli cells from Elowitz et al (2002). | elowitz_data |
| Simulate single-cell expression levels of two reporters | simulateSC |
| Expression of reporter genes in the NL010 E. coli cells from Yang et al (2014). | yang_nl10 |
