sctransform (Q88874): Difference between revisions

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@@ Property / last update @@
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+A normalization method for single-cell UMI count data using a   variance stabilizing transformation. The transformation is based on a   negative binomial regression model with regularized parameters. As part of the  same regression framework, this package also provides functions for  batch correction, and data correction. See Hafemeister and Satija (2019)  <doi:10.1186/s13059-019-1874-1>, and Choudhary and Satija (2022) <doi:10.1186/s13059-021-02584-9>  for more details.
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+Christoph Hafemeister
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+Normalization and variance stabilization of single-cell RNA-seq data using regularized negative binomial regression
+Normal rank
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+Comparison and evaluation of statistical error models for scRNA-seq
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+Software:88874

Latest revision as of 18:55, 12 March 2024

Variance Stabilizing Transformations for Single Cell UMI Data

Language	Label	Description	Also known as
English	sctransform	Variance Stabilizing Transformations for Single Cell UMI Data

Statements

software version identifier

0.3.5

publication date

21 September 2022

0 references

0.1.0

publication date

18 November 2018

0 references

0.2.0

publication date

12 April 2019

0 references

0.2.1

publication date

17 December 2019

0 references

0.3.1

publication date

8 October 2020

0 references

0.3.2

publication date

16 December 2020

0 references

0.3.3

publication date

13 January 2022

0 references

0.3.4

publication date

21 August 2022

0 references

0.3

publication date

20 September 2020

0 references

0.4.0

publication date

19 September 2023

0 references

0.4.1

publication date

19 October 2023

0 references

0 references

0 references

0 references

19 October 2023

0 references

description

A normalization method for single-cell UMI count data using a variance stabilizing transformation. The transformation is based on a negative binomial regression model with regularized parameters. As part of the same regression framework, this package also provides functions for batch correction, and data correction. See Hafemeister and Satija (2019) <doi:10.1186/s13059-019-1874-1>, and Choudhary and Satija (2022) <doi:10.1186/s13059-021-02584-9> for more details.

0 references

author

Christoph Hafemeister

0 references

Saket Choudhary

0 references

copyright license

GNU General Public License, version 3.0

0 references

File License

URL

https://cran.r-project.org/web/packages/sctransform/LICENSE