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EDePasquale / DoubletDecon

A tool for removing doublets from single-cell RNA-seq data

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Trouble understanding the output

yen-tran-91 opened this issue · comments

commented

Hi, I have successfully run the tool both in R and in the app.
In the app, the barplot shows the number of predicted singlet, rescue singlet and final doublet. I wonder where can I found the exact number of those categories in the output file? In the DRS_doublet_table, there is only either TRUE or FALSE in column 'isADoublet'. Could you please explain? Thank you very much!

commented

Hi,

These numbers are generated using the results in the Final_doublets_groups, Final_nondoublets_groups, and DRS_doublet_table files. The DRS_doublet_table shows the results of an intermediate step and has been used to calculate the number originally removed in step 1. The final results listed above, noted by the outputs starting with "Final", in combination with this intermediate file were used to calculate the number of cells that were never called as doublets, those that were never called as singlets, and those that were originally called as doublets but then were rescued in the final step.