diff --git a/flu_stats_unpaired_npa.R b/flu_stats_unpaired_npa.R index f9ac727..d439f10 100755 --- a/flu_stats_unpaired_npa.R +++ b/flu_stats_unpaired_npa.R @@ -20,10 +20,12 @@ rm(colnames_sam_df, expected_rows_sam_lf rm(pivot_cols) +my_sample_type = "npa" #============= # Output: unpaired analysis of time for npa #============= -stats_time_unpaired_flu_npa = paste0(outdir_stats, "flu_stats_time_unpaired_npa.csv") +outfile_name = paste0("flu_stats_time_unpaired_", my_sample_type, ".csv") +flu_stats_time_unpaired = paste0(outdir_stats, outfile_name) #%%======================================================== # data assignment for stats @@ -316,5 +318,5 @@ colnames(combined_unpaired_stats_f) #****************** # write output file #****************** -cat("UNpaired stats for groups will be:", stats_time_unpaired_flu_npa) -write.csv(combined_unpaired_stats_f, stats_time_unpaired_flu_npa, row.names = FALSE) +cat("UNpaired stats for groups will be:", flu_stats_time_unpaired) +write.csv(combined_unpaired_stats_f, flu_stats_time_unpaired, row.names = FALSE) diff --git a/flu_stats_unpaired_sam.R b/flu_stats_unpaired_sam.R index 4af022e..1ed0664 100755 --- a/flu_stats_unpaired_sam.R +++ b/flu_stats_unpaired_sam.R @@ -20,10 +20,13 @@ rm(colnames_npa_df, expected_rows_npa_lf rm(pivot_cols) +my_sample_type = "sam" #============= # Output: unpaired analysis of time for sam #============= -stats_time_unpaired_flu_sam = paste0(outdir_stats, "flu_stats_time_unpaired_sam.csv") +outfile_name = paste0("flu_stats_time_unpaired_", my_sample_type, ".csv") +flu_stats_time_unpaired = paste0(outdir_stats, outfile_name) + #%%======================================================== # data assignment for stats wf = sam_df_adults_clean[sam_df_adults_clean$flustat == 1,] @@ -32,8 +35,6 @@ lf = sam_adults_lf[sam_adults_lf$flustat == 1,] table(lf$timepoint) length(unique(lf$mosaic)) lf$timepoint = paste0("t", lf$timepoint) -my_sample_type = "sam" - ######################################################################## # Unpaired stats at each timepoint b/w groups: wilcoxon UNpaired analysis # with correction @@ -317,5 +318,5 @@ colnames(combined_unpaired_stats_f) #****************** # write output file #****************** -cat("UNpaired stats for groups will be:", stats_time_unpaired_flu_sam) -write.csv(combined_unpaired_stats_f, stats_time_unpaired_flu_sam, row.names = FALSE) +cat("UNpaired stats for groups will be:", flu_stats_time_unpaired) +write.csv(combined_unpaired_stats_f, flu_stats_time_unpaired, row.names = FALSE) diff --git a/flu_stats_unpaired_serum.R b/flu_stats_unpaired_serum.R index 296a4c2..29e2f6a 100755 --- a/flu_stats_unpaired_serum.R +++ b/flu_stats_unpaired_serum.R @@ -20,10 +20,13 @@ rm(colnames_sam_df, expected_rows_sam_lf rm(pivot_cols) +my_sample_type = "serum" #============= # Output: unpaired analysis of time for serum #============= -stats_time_unpaired_flu_serum = paste0(outdir_stats, "flu_stats_time_unpaired_serum.csv") +outfile_name = paste0("flu_stats_time_unpaired_", my_sample_type, ".csv") +flu_stats_time_unpaired = paste0(outdir_stats, outfile_name) + #%%======================================================== # data assignment for stats wf = serum_df_adults_clean[serum_df_adults_clean$flustat == 1,] @@ -32,8 +35,6 @@ lf = serum_adults_lf[serum_adults_lf$flustat == 1,] table(lf$timepoint) lf$timepoint = paste0("t", lf$timepoint) -my_sample_type = "serum" - ######################################################################## # Unpaired stats at each timepoint b/w groups: wilcoxon UNpaired analysis with correction ####################################################################### @@ -315,5 +316,5 @@ colnames(combined_unpaired_stats_f) #****************** # write output file #****************** -cat("UNpaired stats for groups will be:", stats_time_unpaired_flu_serum) -write.csv(combined_unpaired_stats_f, stats_time_unpaired_flu_serum, row.names = FALSE) +cat("UNpaired stats for groups will be:", flu_stats_time_unpaired) +write.csv(combined_unpaired_stats_f, flu_stats_time_unpaired, row.names = FALSE)