read.CPDBv2: Read output from CellPhoneDB v2.
In martaint/InterCellar: InterCellar: an R-Shiny app for interactive analysis and exploration of cell-cell communication in single-cell transcriptomics
read.CPDBv2 R Documentation
Read output from CellPhoneDB v2.
Description
Output is a folder containing 4 .txt files
- deconvoluted.txt: containing list of single genes and their mean
expression in each cluster (not considered);
- means.txt: containing list of interacting pairs with info regarding L/R,
annotation strategy and mean value of all pairs over cluster couples.
- pvalues.txt: same as means, but containing pvalue of each pair, for each
cluster couple.
- significant_means.txt: only means of those pairs that have pvalue < 0.05.
Has one more column:rank.
If the statistical analysis is not run, the folder would contain only
deconvoluted and means
Usage
read.CPDBv2(folder)
Arguments
folder
folder containing output
Value
input.data which is the pre-processed object with annotated L-R pairs
martaint/InterCellar documentation built on April 7, 2022, 11:44 a.m.
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| read.CPDBv2 | R Documentation |
Read output from CellPhoneDB v2.
Description
Output is a folder containing 4 .txt files - deconvoluted.txt: containing list of single genes and their mean expression in each cluster (not considered); - means.txt: containing list of interacting pairs with info regarding L/R, annotation strategy and mean value of all pairs over cluster couples. - pvalues.txt: same as means, but containing pvalue of each pair, for each cluster couple. - significant_means.txt: only means of those pairs that have pvalue < 0.05. Has one more column:rank. If the statistical analysis is not run, the folder would contain only deconvoluted and means
Usage
read.CPDBv2(folder)
Arguments
folder |
folder containing output |
Value
input.data which is the pre-processed object with annotated L-R pairs
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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