get_similar_ions() is a wrapper function to return similar ion groups
determined with the filter_mispicked_ions().
Value
a data.table reporting the main ion and those found to be
similar with filter_mispicked_ions().
Examples
data <- import_data(
example_path("coculture_peak_table.csv"),
example_path("metadata.csv"),
format = "Progenesis"
)
data_filter <- filter_mispicked_ions(data)
#> ℹ Checking 1303 peaks for mispicked peaks.
#> ℹ Argument merge_peaks is: TRUE. Merging mispicked peaks with method sum.
#> ✔ 70 ions failed the mispicked filter, 1233 ions remain.
mispicked_ion_groups <- get_similar_ions(data_filter)
mispicked_ion_groups
#> main_ion similar_ions
#> <char> <list>
#> 1: 1188 1189
#> 2: 939 945
#> 3: 898 896
#> 4: 1214 1210
#> 5: 1253 1249
#> 6: 886 884
#> 7: 1059 1060
#> 8: 1011 1008
#> 9: 1305 1304
#> 10: 1272 1271
#> 11: 1332 1333
#> 12: 944 937
#> 13: 1195 1196
#> 14: 1022 1014
#> 15: 897 895
#> 16: 1233 1228
#> 17: 811 817
#> 18: 851 853
#> 19: 1123 1122
#> 20: 951 938
#> 21: 1146 1145
#> 22: 1019 1021
#> 23: 941 946
#> 24: 878 161
#> 25: 1030 1032,1033
#> 26: 1009 282
#> 27: 153 154
#> 28: 785 779
#> 29: 1256 1254
#> 30: 1216 1224
#> 31: 259 260
#> 32: 263 264
#> 33: 770 18
#> 34: 1004 1012
#> 35: 784 800
#> 36: 1258 1251
#> 37: 903 901
#> 38: 248 969
#> 39: 586 1259
#> 40: 1222 1223
#> 41: 525 528
#> 42: 1103 1095
#> 43: 918 927
#> 44: 1243 1242
#> 45: 411 410
#> 46: 1264 1260
#> 47: 426 427,1157
#> 48: 529 1206
#> 49: 395 393
#> 50: 1247 1252
#> 51: 1203 1204
#> 52: 973 975
#> 53: 583 584
#> 54: 1281 1282
#> 55: 1091 1090
#> 56: 1262 1257
#> 57: 508 507
#> 58: 1089 1087
#> 59: 1155 1153
#> 60: 1263 1261
#> 61: 372 371,373
#> 62: 342 340
#> 63: 1266 1267
#> 64: 545 546
#> 65: 496 495
#> 66: 1288 1289,1290
#> main_ion similar_ions