Single Cell RNA Seq Analysis Code: Difference between revisions
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>YanWu (Created page with "This code is mostly R scripts to run scRNA analysis packages, with some custom built code. The following R code contains functions to do single cell outlier detection given a...") |
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This code is mostly R scripts to run scRNA analysis packages, with some custom built code. | This code is mostly R scripts to run scRNA analysis packages, with some custom built code. | ||
The following R code contains functions to do single cell outlier detection given a set of negative control cells. [[File:simple_outlier_model.R]] | The following R code contains functions to do single cell outlier detection given a set of negative control cells. The module code: [[File:simple_outlier_model.R]]. The R script (sources the previous file): [[File:single_cell_outlier_analysis.R]]. | ||
A script to run SCDE by Peter Kharchenko's group: [[File:single_cell_scde_analysis.R]] | |||
A script to run scDD by Keegan Korthauer: [[File:single_cell_scDD_analysis.R]] | |||
A script to run basic RNA-Seq PCA and clustering analysis with the Seurat package by Rahul Satija's group: [[File:single_cell_seurat_analysis.R]] |
Latest revision as of 00:14, 22 May 2016
This code is mostly R scripts to run scRNA analysis packages, with some custom built code.
The following R code contains functions to do single cell outlier detection given a set of negative control cells. The module code: File:Simple outlier model.R. The R script (sources the previous file): File:Single cell outlier analysis.R.
A script to run SCDE by Peter Kharchenko's group: File:Single cell scde analysis.R
A script to run scDD by Keegan Korthauer: File:Single cell scDD analysis.R
A script to run basic RNA-Seq PCA and clustering analysis with the Seurat package by Rahul Satija's group: File:Single cell seurat analysis.R