diff --git a/stats_check.R b/stats_check.R index 4bc5f5e..e2bb218 100755 --- a/stats_check.R +++ b/stats_check.R @@ -5,12 +5,12 @@ #============= # Input #============= -source("data_extraction_formatting.R") +source("plot_data.R") #%%======================================================== # data assignment for stats -wf_npa = npa_df_adults_clean[npa_df_adults_clean$flustat == 1,] -wf_sam = sam_df_adults_clean[sam_df_adults_clean$flustat == 1,] -wf_serum = serum_df_adults_clean[serum_df_adults_clean$flustat == 1,] +wf_npa = wf_fp_npa +wf_sam = wf_fp_sam +wf_serum = wf_fp_serum ############################################################ #========= # t1 @@ -21,12 +21,18 @@ length(wf_npa$eotaxin3_npa1) - sum(is.na(wf_npa$eotaxin3_npa1)) wilcox.test(wf_npa$il12p70_npa1[wf_npa$obesity == 1], wf_npa$il12p70_npa1[wf_npa$obesity == 0], paired = F) length(wf_npa$il12p70_npa1) - sum(is.na(wf_npa$il12p70_npa1)) +tapply(wf_npa$eotaxin3_npa1, wf_npa$obesity, mean, na.rm = T) +tapply(wf_npa$eotaxin3_npa1, wf_npa$obesity, median, na.rm = T) + #========= # t2 #========= wilcox.test(wf_npa$il4_npa2[wf_npa$obesity == 1], wf_npa$il4_npa2[wf_npa$obesity == 0], paired = F) length(wf_npa$il4_npa2) - sum(is.na(wf_npa$il4_npa2)) +tapply(wf_npa$il4_npa2, wf_npa$obesity, mean, na.rm = T) +tapply(wf_npa$il4_npa2, wf_npa$obesity, median, na.rm = T) + #========= # t3 #========= @@ -45,11 +51,17 @@ length(wf_sam$eotaxin3_sam1) - sum(is.na(wf_sam$eotaxin3_sam1)) wilcox.test(wf_sam$il12p70_sam1[wf_sam$obesity == 1], wf_sam$il12p70_sam1[wf_sam$obesity == 0], paired = F) length(wf_sam$il12p70_sam1) - sum(is.na(wf_sam$il12p70_sam1)) +tapply(wf_sam$il13_sam1, wf_sam$obesity, mean, na.rm = T) +tapply(wf_sam$il13_sam1, wf_sam$obesity, median, na.rm = T) + #========= # t2 #========= -wilcox.test(wf_sam$il4_sam2[wf_sam$obesity == 1], wf_sam$il4_sam2[wf_sam$obesity == 0], paired = F) -length(wf_sam$il4_sam2) - sum(is.na(wf_sam$il4_sam2)) +wilcox.test(wf_sam$il5_sam2[wf_sam$obesity == 1], wf_sam$il5_sam2[wf_sam$obesity == 0], paired = F) +length(wf_sam$il5_sam2) - sum(is.na(wf_sam$il5_sam2)) + +tapply(wf_sam$il29_sam2, wf_sam$obesity, mean, na.rm = T) +tapply(wf_sam$il29_sam2, wf_sam$obesity, median, na.rm = T) #========= # t3 @@ -68,14 +80,17 @@ length(wf_sam$tnfr1_sam3) - sum(is.na(wf_sam$tnfr1_sam3)) wilcox.test(wf_serum$eotaxin3_serum1[wf_serum$obesity == 1], wf_serum$eotaxin3_serum1[wf_serum$obesity == 0], paired = F) length(wf_serum$eotaxin3_serum1) - sum(is.na(wf_serum$eotaxin3_serum1)) -wilcox.test(wf_serum$ifna2a_serum1[wf_serum$obesity == 1], wf_serum$ifna2a_serum1[wf_serum$obesity == 0], paired = F) -length(wf_serum$ifna2a_serum1) - sum(is.na(wf_serum$ifna2a_serum1)) +wilcox.test(wf_serum$neopterin_serum1[wf_serum$obesity == 1], wf_serum$neopterin_serum1[wf_serum$obesity == 0], paired = F) +length(wf_serum$neopterin_serum1) - sum(is.na(wf_serum$neopterin_serum1)) + +tapply(wf_serum$eotaxin3_serum1, wf_serum$obesity, mean, na.rm = T) +tapply(wf_serum$eotaxin3_serum1, wf_serum$obesity, median, na.rm = T) #========= # t2 #========= -wilcox.test(wf_serum$il5_serum2[wf_serum$obesity == 1], wf_serum$il5_serum2[wf_serum$obesity == 0], paired = F) -length(wf_serum$il5_serum2) - sum(is.na(wf_serum$il5_serum2)) +wilcox.test(wf_serum$il8_2_serum2[wf_serum$obesity == 1], wf_serum$il8_2_serum2[wf_serum$obesity == 0], paired = F) +length(wf_serum$il8_2_serum2) - sum(is.na(wf_serum$il8_2_serum2)) #========= # t3 @@ -83,3 +98,6 @@ length(wf_serum$il5_serum2) - sum(is.na(wf_serum$il5_serum2)) wilcox.test(wf_serum$rantes_serum3[wf_serum$obesity == 1], wf_serum$rantes_serum3[wf_serum$obesity == 0], paired = F) length(wf_serum$rantes_serum3) - sum(is.na(wf_serum$rantes_serum3)) +tapply(wf_serum$itac_serum3, wf_serum$obesity, mean, na.rm = T) +tapply(wf_serum$itac_serum3, wf_serum$obesity, median, na.rm = T) +