failed to run the code smoothly

Jiumeizhu commented 3 years ago

Thanks for your great work "BloodGen3Module", I really like this kind of analysis, and it is really helpful for blood Modular transcriptional repertoire analyses in rheumatology disease,

However, when I use your package, I found I failed to run the code smoothly, Then I run the simple example data in the instructions, it always shows the same error as below：

library(BloodGen3Module) Test_sample = matrix(data = rexp(1000, rate = 0.01), nrow = 14168, ncol = 20) control_sample = matrix(data = rexp(1000, rate = 0.1), nrow = 14168, ncol = 10) data.matrix = data.frame(cbind(Test_sample, control_sample)) data.matrix$Symbol = Module_listGen3$Gene data.matrix = aggregate(data.matrix[,-31], FUN = mean, by = list(data.matrix$Symbol)) rownames(data.matrix) = data.matrix$Group.1 data.matrix$Group.1 = NULL colnames(data.matrix) = c(paste0(rep("SampleID", 30), 1:30)) sample_ann = data.frame(SampleID = (colnames(data.matrix)), Group_test = c(rep("Test", 20), rep("Control",10)), stringsAsFactors = FALSE) rownames(sample_ann) = sample_ann$SampleID Group_limma <- Groupcomparisonlimma(data.matrix, sample_info = sample_ann, FC = 1.5, pval = 0.1, FDR = TRUE, Group_column = "Group_test",Test_group = "Test", Ref_group = "Control")

Error in fold_change(df_raw) : object 'Test_group' not found

looking forward to your suggestions, Best wishes, Honglin

Drinchai commented 3 years ago

Hi Honglin,

Thanks for you report. I just updated some functions.It should be OK now. Could you re-install the package and run the analysis again?

Jiumeizhu commented 3 years ago

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    Hi Drinchai,
    Thank you so much!I can run it

smoothly,Best wishes,Honglin

On 1/17/2021 04:29，Drinchai<notifications@github.com> wrote：

Hi Honglin, Thanks for you report. I just updated some functions.It should be OK now. Could you re-install the package and run the analysis again?

—You are receiving this because you authored the thread.Reply to this email directly, view it on GitHub, or unsubscribe.

Drinchai / BloodGen3Module

failed to run the code smoothly #1