missing presence show using venn diagram

fgcz / prolfqua

Differential Expression Analysis tool box R lang package for omics data

https://pubs.acs.org/doi/pdf/10.1021/acs.jproteome.2c00441

MIT License

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missing presence show using venn diagram #28

Closed wolski closed 10 months ago

wolski commented 2 years ago

Possible code

sum$missingness_per_condition()
tr <- 2
nrMiss <- tmp$data %>% pivot_wider(id_cols = "protein_Id", names_from = "bait", values_from = nrMeasured)
nrMiss[,2:4][nrMiss[,2:4] < tr] <- 0
nrMiss[,2:4][nrMiss[,2:4] >= tr] <- 1

upset(as.data.frame(nrMiss), order.by = "freq")

serenygttrk commented 11 months ago

Hello, Comparing 2 groups from protein.txt file and sample size estimation: I want to see non-finite values in the histogram but it is giving the error as below. "Removed 88 rows containing non-finite values (stat_density()). " In the following statisics, I continue receiving the error and instead of showing results from my 2 treatments, I get only "All" results. Could you help me with it please?

wolski commented 11 months ago

Hallo,

@serenygttrk I need more information to understand the problem. Can you please share your code and the input data?

Best regards Witold

wolski commented 10 months ago

Upset Plot is implemented