iTALK
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About batch effects
Thanks for providing such nice R code! Here i have some questions about the batch effects.
In the reference article (iTALK: an R package to Characterize and Illustrate Intercelluar Communication), it said "iTALK incorporates commonly used algorithms for batch effects corrections and differential gene expression analysis (Online Methods), which also allows the flexibility to select the method that suits the user’s data best." Then i use help("rawParse") function in R, and the document said " Batch information as 'batch' is optional. If included, users may want to use the raw count data for later analysis." When i use "rawParse" function for my own data, i could't find any "batch" related option. I don’t understand how the batch effect is removed in the iTALK package.