Last updated: 2022-02-10
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Knit directory: Serreze-T1D_Workflow/
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| File | Version | Author | Date | Message |
|---|---|---|---|---|
| Rmd | d199bd4 | Belinda Cornes | 2022-02-10 | QC analysis |
| Neogen_Sample_ID | Missing | AA | AC | AG | AT | CC | CG | GC | GG | TA | TC | TG | TT | Total_Genotyped | Percent_Genotyped | MURGIGV01_SNP.Count | cr |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| NG00452-EOI | 5366 | 29805 | 1695 | 6878 | 6 | 30667 | 6 | 6 | 30943 | 3 | 6653 | 1574 | 29657 | 137893 | 96.25% | 143259 | 0.962543365512812 |
| NG00657-EOI | 5834 | 31408 | 973 | 4047 | 12 | 32339 | 7 | 4 | 32570 | 0 | 3979 | 999 | 31087 | 137425 | 95.93% | 143259 | 0.959276555050643 |
| NG00927-ICI | 5305 | 29944 | 1675 | 6572 | 6 | 30806 | 5 | 2 | 31153 | 1 | 6469 | 1557 | 29764 | 137954 | 96.30% | 143259 | 0.962969167731172 |
| NG01228-ICI | 5382 | 29717 | 1657 | 6926 | 10 | 30633 | 5 | 8 | 30949 | 3 | 6721 | 1622 | 29626 | 137877 | 96.24% | 143259 | 0.962431679685046 |
| NG01369-ICI | 5429 | 30517 | 1386 | 5694 | 5 | 31316 | 3 | 2 | 31629 | 1 | 5679 | 1343 | 30255 | 137830 | 96.21% | 143259 | 0.962103602565982 |
| NG01455-ICI | 5426 | 31189 | 1158 | 4569 | 5 | 31955 | 2 | 3 | 32330 | 2 | 4569 | 1133 | 30918 | 137833 | 96.21% | 143259 | 0.962124543658688 |
| NG00440-EOI | 5491 | 29751 | 1657 | 6903 | 5 | 30592 | 6 | 3 | 30865 | 4 | 6702 | 1629 | 29651 | 137768 | 96.17% | 143259 | 0.961670819983387 |
| NG00659-EOI | 5750 | 29508 | 1761 | 7251 | 7 | 30248 | 7 | 5 | 30582 | 3 | 7069 | 1742 | 29326 | 137509 | 95.99% | 143259 | 0.959862905646417 |
| NG00993-ICI | 5363 | 30322 | 1472 | 6059 | 6 | 31135 | 5 | 4 | 31413 | 2 | 5880 | 1454 | 30144 | 137896 | 96.26% | 143259 | 0.962564306605519 |
| NG01229-ICI | 5726 | 29747 | 1626 | 6987 | 12 | 30566 | 6 | 1 | 30735 | 0 | 6659 | 1640 | 29554 | 137533 | 96.00% | 143259 | 0.960030434388066 |
| NG01370-ICI | 5273 | 29655 | 1739 | 7002 | 11 | 30570 | 7 | 5 | 30907 | 3 | 6861 | 1642 | 29584 | 137986 | 96.32% | 143259 | 0.963192539386705 |
| NG00198-ICI-LATE | 5329 | 31108 | 1195 | 4658 | 6 | 32038 | 5 | 4 | 32325 | 0 | 4563 | 1173 | 30855 | 137930 | 96.28% | 143259 | 0.962801638989522 |
| NG00446-EOI | 5334 | 30666 | 1324 | 5449 | 9 | 31638 | 8 | 3 | 31890 | 2 | 5237 | 1276 | 30423 | 137925 | 96.28% | 143259 | 0.962766737168345 |
| NG00695-EOI | 5327 | 29418 | 1888 | 7528 | 4 | 30154 | 6 | 4 | 30487 | 1 | 7389 | 1816 | 29237 | 137932 | 96.28% | 143259 | 0.962815599717993 |
| NG01024-ICI | 5517 | 30136 | 1585 | 6233 | 6 | 30879 | 7 | 5 | 31217 | 3 | 6229 | 1533 | 29909 | 137742 | 96.15% | 143259 | 0.961489330513266 |
| NG01245-ICI | 5496 | 29265 | 1904 | 7654 | 13 | 30121 | 8 | 5 | 30434 | 5 | 7445 | 1769 | 29140 | 137763 | 96.16% | 143259 | 0.96163591816221 |
| NG01374-ICI | 5287 | 30650 | 1417 | 5522 | 8 | 31469 | 6 | 3 | 31748 | 0 | 5426 | 1347 | 30376 | 137972 | 96.31% | 143259 | 0.96309481428741 |
| NG00329-ICI-LATE | 5392 | 29946 | 1599 | 6560 | 10 | 30737 | 8 | 5 | 31118 | 3 | 6546 | 1592 | 29743 | 137867 | 96.24% | 143259 | 0.962361876042692 |
| NG00578-EOI | 5264 | 29906 | 1581 | 6746 | 5 | 30810 | 3 | 1 | 31051 | 0 | 6650 | 1668 | 29574 | 137995 | 96.33% | 143259 | 0.963255362664824 |
| NG00696-EOI | 5276 | 31378 | 1113 | 4308 | 3 | 32134 | 5 | 0 | 32523 | 1 | 4305 | 1052 | 31161 | 137983 | 96.32% | 143259 | 0.963171598293999 |
| NG01026-ICI | 5323 | 29787 | 1615 | 6896 | 9 | 30725 | 10 | 3 | 30976 | 0 | 6838 | 1556 | 29521 | 137936 | 96.28% | 143259 | 0.962843521174935 |
| NG01290-ICI | 5339 | 29841 | 1657 | 6757 | 7 | 30705 | 6 | 3 | 31083 | 4 | 6599 | 1502 | 29756 | 137920 | 96.27% | 143259 | 0.962731835347168 |
| NG01391-ICI | 5426 | 30161 | 1535 | 6269 | 9 | 30930 | 6 | 4 | 31257 | 1 | 6237 | 1501 | 29923 | 137833 | 96.21% | 143259 | 0.962124543658688 |
| NG00343-ICI-LATE | 5333 | 31007 | 1246 | 4913 | 3 | 31798 | 7 | 2 | 32102 | 1 | 4891 | 1242 | 30714 | 137926 | 96.28% | 143259 | 0.962773717532581 |
| NG00579-EOI | 5252 | 29473 | 1833 | 7415 | 5 | 30331 | 7 | 3 | 30654 | 1 | 7228 | 1714 | 29343 | 138007 | 96.33% | 143259 | 0.963339127035649 |
| NG00699-EOI | 5301 | 28291 | 2278 | 9234 | 12 | 29185 | 7 | 5 | 29514 | 3 | 9062 | 2200 | 28167 | 137958 | 96.30% | 143259 | 0.962997089188114 |
| NG01050-ICI | 5323 | 28703 | 2053 | 8536 | 11 | 29688 | 8 | 5 | 29965 | 0 | 8371 | 2007 | 28589 | 137936 | 96.28% | 143259 | 0.962843521174935 |
| NG01294-ICI | 5313 | 29842 | 1692 | 6813 | 9 | 30633 | 3 | 3 | 30961 | 2 | 6888 | 1635 | 29465 | 137946 | 96.29% | 143259 | 0.962913324817289 |
| NG01358-ICI | 5304 | 29832 | 1647 | 6755 | 6 | 30764 | 5 | 4 | 31088 | 3 | 6624 | 1608 | 29619 | 137955 | 96.30% | 143259 | 0.962976148095408 |
| NG00386-ICI-LATE | 5296 | 29583 | 1761 | 7226 | 5 | 30436 | 11 | 6 | 30726 | 3 | 7155 | 1726 | 29325 | 137963 | 96.30% | 143259 | 0.963031991009291 |
| NG00617-EOI | 5359 | 28022 | 2328 | 9672 | 10 | 28975 | 7 | 4 | 29195 | 5 | 9510 | 2288 | 27884 | 137900 | 96.26% | 143259 | 0.96259222806246 |
| NG00738-EOI | 5417 | 30020 | 1587 | 6405 | 11 | 30988 | 6 | 4 | 31231 | 2 | 6264 | 1535 | 29789 | 137842 | 96.22% | 143259 | 0.962187366936807 |
| NG01036-ICI | 5294 | 29887 | 1656 | 6755 | 3 | 30719 | 2 | 3 | 31034 | 1 | 6596 | 1610 | 29699 | 137965 | 96.30% | 143259 | 0.963045951737762 |
| NG01299-ICI | 5289 | 30997 | 1180 | 4920 | 8 | 31920 | 5 | 1 | 32128 | 0 | 4886 | 1232 | 30693 | 137970 | 96.31% | 143259 | 0.963080853558939 |
| NG01377-ICI | 5322 | 29335 | 1893 | 7654 | 9 | 30154 | 9 | 3 | 30450 | 1 | 7540 | 1808 | 29081 | 137937 | 96.29% | 143259 | 0.96285050153917 |
| NG00442-ICI-LATE | 5359 | 30609 | 1399 | 5447 | 6 | 31472 | 6 | 7 | 31834 | 3 | 5475 | 1334 | 30308 | 137900 | 96.26% | 143259 | 0.96259222806246 |
| NG00626-EOI | 5351 | 29642 | 1769 | 7043 | 9 | 30467 | 9 | 4 | 30840 | 3 | 7016 | 1686 | 29420 | 137908 | 96.26% | 143259 | 0.962648070976344 |
| NG00736-EOI | 5349 | 30681 | 1298 | 5361 | 9 | 31660 | 4 | 5 | 31953 | 2 | 5154 | 1234 | 30549 | 137910 | 96.27% | 143259 | 0.962662031704814 |
| NG01018-ICI | 5371 | 29987 | 1603 | 6471 | 8 | 30844 | 5 | 4 | 31147 | 4 | 6511 | 1591 | 29713 | 137888 | 96.25% | 143259 | 0.962508463691635 |
| NG01310-ICI | 5291 | 29012 | 1938 | 8103 | 9 | 29977 | 9 | 4 | 30250 | 3 | 7929 | 1867 | 28867 | 137968 | 96.31% | 143259 | 0.963066892830468 |
| NG01383-ICI | 5372 | 30207 | 1536 | 6121 | 8 | 31088 | 8 | 3 | 31407 | 5 | 5994 | 1474 | 30036 | 137887 | 96.25% | 143259 | 0.9625014833274 |
| NG00443-ICI-LATE | 5302 | 28742 | 2139 | 8583 | 8 | 29604 | 8 | 5 | 29908 | 3 | 8239 | 2027 | 28691 | 137957 | 96.30% | 143259 | 0.962990108823878 |
| NG00628-EOI | 5394 | 29382 | 1879 | 7537 | 7 | 30146 | 7 | 4 | 30477 | 5 | 7501 | 1791 | 29129 | 137865 | 96.23% | 143259 | 0.962347915314221 |
| NG00815-PBS | 5420 | 30852 | 1310 | 5106 | 3 | 31585 | 3 | 4 | 32014 | 5 | 5115 | 1247 | 30595 | 137839 | 96.22% | 143259 | 0.962166425844101 |
| NG01129-ICI | 5329 | 29870 | 1541 | 6757 | 9 | 30762 | 4 | 1 | 31042 | 4 | 6717 | 1571 | 29652 | 137930 | 96.28% | 143259 | 0.962801638989522 |
| NG01311-ICI | 5293 | 29699 | 1708 | 6959 | 8 | 30588 | 7 | 4 | 30919 | 1 | 6835 | 1677 | 29561 | 137966 | 96.31% | 143259 | 0.963052932101997 |
| NG01398-ICI | 5309 | 29962 | 1631 | 6576 | 10 | 30881 | 5 | 5 | 31146 | 5 | 6331 | 1554 | 29844 | 137950 | 96.29% | 143259 | 0.962941246274231 |
| NG00526-ICI-LATE | 5293 | 30121 | 1527 | 6259 | 8 | 31147 | 6 | 5 | 31386 | 4 | 6083 | 1498 | 29922 | 137966 | 96.31% | 143259 | 0.963052932101997 |
| NG00629-EOI | 5337 | 29260 | 1819 | 7675 | 8 | 30303 | 4 | 2 | 30521 | 2 | 7295 | 1769 | 29264 | 137922 | 96.27% | 143259 | 0.962745796075639 |
| NG00864-PBS | 5637 | 30987 | 1149 | 4945 | 9 | 31846 | 6 | 3 | 32022 | 3 | 4729 | 1190 | 30733 | 137622 | 96.07% | 143259 | 0.960651686805017 |
| NG01131-ICI | 5332 | 31346 | 1048 | 4236 | 6 | 32269 | 4 | 4 | 32633 | 0 | 4173 | 1071 | 31137 | 137927 | 96.28% | 143259 | 0.962780697896816 |
| NG01287-ICI | 5334 | 30031 | 1501 | 6466 | 9 | 30961 | 6 | 2 | 31228 | 1 | 6298 | 1546 | 29876 | 137925 | 96.28% | 143259 | 0.962766737168345 |
| NG01422-ICI | 5535 | 30493 | 1401 | 5779 | 7 | 31186 | 4 | 1 | 31478 | 3 | 5775 | 1363 | 30234 | 137724 | 96.14% | 143259 | 0.961363683957029 |
| NG00522-ICI-LATE | 5386 | 30045 | 1595 | 6428 | 11 | 30935 | 7 | 5 | 31210 | 0 | 6281 | 1506 | 29850 | 137873 | 96.24% | 143259 | 0.962403758228104 |
| NG00664-EOI | 5485 | 29399 | 1808 | 7566 | 8 | 30193 | 4 | 3 | 30409 | 2 | 7399 | 1797 | 29186 | 137774 | 96.17% | 143259 | 0.961712702168799 |
| NG01182-PBS | 5595 | 29416 | 1799 | 7505 | 10 | 30203 | 6 | 5 | 30425 | 5 | 7412 | 1757 | 29121 | 137664 | 96.09% | 143259 | 0.960944862102905 |
| NG01105-ICI | 5341 | 30442 | 1451 | 5792 | 7 | 31260 | 4 | 7 | 31620 | 2 | 5811 | 1403 | 30119 | 137918 | 96.27% | 143259 | 0.962717874618698 |
| NG01332-ICI | 5616 | 29800 | 1763 | 6862 | 10 | 30481 | 11 | 4 | 30751 | 1 | 6818 | 1677 | 29465 | 137643 | 96.08% | 143259 | 0.960798274453961 |
| NG01435-ICI | 5277 | 30615 | 1324 | 5562 | 6 | 31471 | 7 | 3 | 31796 | 1 | 5523 | 1326 | 30348 | 137982 | 96.32% | 143259 | 0.963164617929764 |
| NG00790-ICI-LATE | 5258 | 29798 | 1631 | 6782 | 5 | 30786 | 8 | 2 | 31046 | 2 | 6663 | 1693 | 29585 | 138001 | 96.33% | 143259 | 0.963297244850236 |
| NG00665-EOI | 5347 | 28731 | 2088 | 8579 | 6 | 29533 | 6 | 5 | 29868 | 2 | 8500 | 2062 | 28532 | 137912 | 96.27% | 143259 | 0.962675992433285 |
| NG01154-PBS | 5372 | 30709 | 1280 | 5352 | 8 | 31625 | 5 | 1 | 31931 | 0 | 5245 | 1269 | 30462 | 137887 | 96.25% | 143259 | 0.9625014833274 |
| NG01190-ICI | 5437 | 29359 | 1739 | 7464 | 9 | 30317 | 8 | 6 | 30617 | 5 | 7348 | 1741 | 29209 | 137822 | 96.20% | 143259 | 0.962047759652099 |
| NG01343-ICI | 5458 | 29434 | 1845 | 7441 | 10 | 30193 | 9 | 5 | 30520 | 2 | 7305 | 1789 | 29248 | 137801 | 96.19% | 143259 | 0.961901172003155 |
| NG01439-ICI | 5334 | 30001 | 1543 | 6509 | 6 | 30963 | 1 | 3 | 31211 | 1 | 6339 | 1564 | 29784 | 137925 | 96.28% | 143259 | 0.962766737168345 |
| NG00874-ICI-LATE | 5377 | 29351 | 1819 | 7565 | 9 | 30241 | 6 | 3 | 30508 | 2 | 7399 | 1822 | 29157 | 137882 | 96.25% | 143259 | 0.962466581506223 |
| NG00654-EOI | 5285 | 29484 | 1833 | 7323 | 7 | 30410 | 5 | 4 | 30738 | 4 | 7111 | 1695 | 29360 | 137974 | 96.31% | 143259 | 0.96310877501588 |
| NG01204-PBS | 5311 | 29194 | 1887 | 7763 | 9 | 30160 | 7 | 5 | 30454 | 5 | 7449 | 1828 | 29187 | 137948 | 96.29% | 143259 | 0.96292728554576 |
| NG01213-ICI | 5301 | 30153 | 1483 | 6198 | 11 | 31208 | 7 | 1 | 31470 | 3 | 5895 | 1423 | 30106 | 137958 | 96.30% | 143259 | 0.962997089188114 |
| NG01386-ICI | 5283 | 29245 | 1854 | 7714 | 8 | 30210 | 8 | 5 | 30497 | 2 | 7544 | 1789 | 29100 | 137976 | 96.31% | 143259 | 0.963122735744351 |
| NG01444-ICI | 5404 | 30645 | 1330 | 5506 | 4 | 31497 | 9 | 6 | 31773 | 2 | 5360 | 1335 | 30388 | 137855 | 96.23% | 143259 | 0.962278111671867 |
| NG00929-ICI-LATE | 5405 | 30301 | 1432 | 6078 | 13 | 31194 | 5 | 2 | 31436 | 3 | 5916 | 1387 | 30087 | 137854 | 96.23% | 143259 | 0.962271131307632 |
| Neogen_Sample_ID | Provided.Sex | Inferred.Sex |
|---|---|---|
| NG00452-EOI | F | M |
| NG00657-EOI | F | M |
| NG00927-ICI | F | M |
| NG01228-ICI | F | M |
| NG01369-ICI | F | M |
| NG01455-ICI | F | M |
| NG00440-EOI | F | M |
| NG00659-EOI | F | M |
| NG00993-ICI | F | M |
| NG01229-ICI | F | M |
| NG01370-ICI | F | M |
| NG00198-ICI-LATE | F | M |
| NG00446-EOI | F | M |
| NG00695-EOI | F | M |
| NG01024-ICI | F | M |
| NG01245-ICI | F | M |
| NG01374-ICI | F | M |
| NG00329-ICI-LATE | F | M |
| NG00578-EOI | F | M |
| NG00696-EOI | F | M |
| NG01026-ICI | F | M |
| NG01290-ICI | F | M |
| NG01391-ICI | F | M |
| NG00343-ICI-LATE | F | M |
| NG00579-EOI | F | M |
| NG00699-EOI | F | M |
| NG01050-ICI | F | M |
| NG01294-ICI | F | M |
| NG01358-ICI | F | M |
| NG00386-ICI-LATE | F | M |
| NG00617-EOI | F | M |
| NG00738-EOI | F | M |
| NG01036-ICI | F | M |
| NG01299-ICI | F | M |
| NG01377-ICI | F | M |
| NG00442-ICI-LATE | F | M |
| NG00626-EOI | F | M |
| NG00736-EOI | F | M |
| NG01018-ICI | F | M |
| NG01310-ICI | F | M |
| NG01383-ICI | F | M |
| NG00443-ICI-LATE | F | M |
| NG00628-EOI | F | M |
| NG00815-PBS | F | M |
| NG01129-ICI | F | M |
| NG01311-ICI | F | M |
| NG01398-ICI | F | M |
| NG00526-ICI-LATE | F | M |
| NG00629-EOI | F | M |
| NG00864-PBS | F | M |
| NG01131-ICI | F | M |
| NG01287-ICI | F | M |
| NG01422-ICI | F | M |
| NG00522-ICI-LATE | F | M |
| NG00664-EOI | F | M |
| NG01182-PBS | F | M |
| NG01105-ICI | F | M |
| NG01332-ICI | F | M |
| NG01435-ICI | F | M |
| NG00790-ICI-LATE | F | M |
| NG00665-EOI | F | M |
| NG01154-PBS | F | M |
| NG01190-ICI | F | M |
| NG01343-ICI | F | M |
| NG01439-ICI | F | M |
| NG00874-ICI-LATE | F | M |
| NG00654-EOI | F | M |
| NG01204-PBS | F | M |
| NG01213-ICI | F | M |
| NG01386-ICI | F | M |
| NG01444-ICI | F | M |
| NG00929-ICI-LATE | F | M |
| Neogen_Sample_ID | age.of.onset | group | diabetic.status | strain |
|---|---|---|---|---|
| NG00452-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG00657-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG00927-ICI | 15.9 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01228-ICI | 10.7 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01369-ICI | 12.6 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01455-ICI | 10.9 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG00440-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG00659-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG00993-ICI | 12.7 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01229-ICI | 13.7 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01370-ICI | 14.0 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG00198-ICI-LATE | 24.9 | ICI | T1D>17 | (F1 x NOD)BC1 |
| NG00446-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG00695-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG01024-ICI | 14.0 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01245-ICI | 12.7 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01374-ICI | 13.0 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG00329-ICI-LATE | 18.0 | ICI | T1D>17 | (F1 x NOD)BC1 |
| NG00578-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG00696-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG01026-ICI | 14.0 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01290-ICI | 13.3 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01391-ICI | 13.1 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG00343-ICI-LATE | 22.1 | ICI | T1D>17 | (F1 x NOD)BC1 |
| NG00579-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG00699-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG01050-ICI | 13.0 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01294-ICI | 13.3 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01358-ICI | 12.6 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG00386-ICI-LATE | 17.6 | ICI | T1D>17 | (F1 x NOD)BC1 |
| NG00617-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG00738-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG01036-ICI | 13.4 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01299-ICI | 12.1 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01377-ICI | 11.7 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG00442-ICI-LATE | 18.6 | ICI | T1D>17 | (F1 x NOD)BC1 |
| NG00626-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG00736-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG01018-ICI | 15.1 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01310-ICI | 12.1 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01383-ICI | 11.7 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG00443-ICI-LATE | 18.6 | ICI | T1D>17 | (F1 x NOD)BC1 |
| NG00628-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG00815-PBS | 32.4 | PBS | Spont. T1D | (F1 x NOD)BC1 |
| NG01129-ICI | 12.0 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01311-ICI | 15.0 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01398-ICI | 13.3 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG00526-ICI-LATE | 29.4 | ICI | T1D>17 | (F1 x NOD)BC1 |
| NG00629-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG00864-PBS | 28.1 | PBS | Spont. T1D | (F1 x NOD)BC1 |
| NG01131-ICI | 12.0 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01287-ICI | 13.7 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01422-ICI | 11.3 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG00522-ICI-LATE | 34.3 | ICI | T1D>17 | (F1 x NOD)BC1 |
| NG00664-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG01182-PBS | 18.4 | PBS | Spont. T1D | (F1 x NOD)BC1 |
| NG01105-ICI | 11.7 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01332-ICI | 12.4 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01435-ICI | 11.3 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG00790-ICI-LATE | 23.7 | ICI | T1D>17 | (F1 x NOD)BC1 |
| NG00665-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG01154-PBS | 19.0 | PBS | Spont. T1D | (F1 x NOD)BC1 |
| NG01190-ICI | 12.1 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01343-ICI | 12.7 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01439-ICI | 12.3 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG00874-ICI-LATE | 18.9 | ICI | T1D>17 | (F1 x NOD)BC1 |
| NG00654-EOI | 0.0 | EOI | ICI-No Diabetes | (F1 x NOD)BC1 |
| NG01204-PBS | 14.1 | PBS | Spont. T1D | (F1 x NOD)BC1 |
| NG01213-ICI | 13.0 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01386-ICI | 15.1 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG01444-ICI | 12.9 | ICI | T1D<17 | (F1 x NOD)BC1 |
| NG00929-ICI-LATE | 27.0 | ICI | T1D>17 | (F1 x NOD)BC1 |
| Neogen_Sample_ID | no_pheno | low_call.rate | different_sex |
|---|---|---|---|
| NG00452-EOI | XX | ||
| NG00657-EOI | XX | ||
| NG00927-ICI | XX | ||
| NG01228-ICI | XX | ||
| NG01369-ICI | XX | ||
| NG01455-ICI | XX | ||
| NG00440-EOI | XX | ||
| NG00659-EOI | XX | ||
| NG00993-ICI | XX | ||
| NG01229-ICI | XX | ||
| NG01370-ICI | XX | ||
| NG00198-ICI-LATE | XX | ||
| NG00446-EOI | XX | ||
| NG00695-EOI | XX | ||
| NG01024-ICI | XX | ||
| NG01245-ICI | XX | ||
| NG01374-ICI | XX | ||
| NG00329-ICI-LATE | XX | ||
| NG00578-EOI | XX | ||
| NG00696-EOI | XX | ||
| NG01026-ICI | XX | ||
| NG01290-ICI | XX | ||
| NG01391-ICI | XX | ||
| NG00343-ICI-LATE | XX | ||
| NG00579-EOI | XX | ||
| NG00699-EOI | XX | ||
| NG01050-ICI | XX | ||
| NG01294-ICI | XX | ||
| NG01358-ICI | XX | ||
| NG00386-ICI-LATE | XX | ||
| NG00617-EOI | XX | ||
| NG00738-EOI | XX | ||
| NG01036-ICI | XX | ||
| NG01299-ICI | XX | ||
| NG01377-ICI | XX | ||
| NG00442-ICI-LATE | XX | ||
| NG00626-EOI | XX | ||
| NG00736-EOI | XX | ||
| NG01018-ICI | XX | ||
| NG01310-ICI | XX | ||
| NG01383-ICI | XX | ||
| NG00443-ICI-LATE | XX | ||
| NG00628-EOI | XX | ||
| NG00815-PBS | XX | ||
| NG01129-ICI | XX | ||
| NG01311-ICI | XX | ||
| NG01398-ICI | XX | ||
| NG00526-ICI-LATE | XX | ||
| NG00629-EOI | XX | ||
| NG00864-PBS | XX | ||
| NG01131-ICI | XX | ||
| NG01287-ICI | XX | ||
| NG01422-ICI | XX | ||
| NG00522-ICI-LATE | XX | ||
| NG00664-EOI | XX | ||
| NG01182-PBS | XX | ||
| NG01105-ICI | XX | ||
| NG01332-ICI | XX | ||
| NG01435-ICI | XX | ||
| NG00790-ICI-LATE | XX | ||
| NG00665-EOI | XX | ||
| NG01154-PBS | XX | ||
| NG01190-ICI | XX | ||
| NG01343-ICI | XX | ||
| NG01439-ICI | XX | ||
| NG00874-ICI-LATE | XX | ||
| NG00654-EOI | XX | ||
| NG01204-PBS | XX | ||
| NG01213-ICI | XX | ||
| NG01386-ICI | XX | ||
| NG01444-ICI | XX | ||
| NG00929-ICI-LATE | XX |
R version 3.6.2 (2019-12-12)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS Catalina 10.15.7
Matrix products: default
BLAS: /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRblas.0.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRlapack.dylib
locale:
[1] en_AU.UTF-8/en_AU.UTF-8/en_AU.UTF-8/C/en_AU.UTF-8/en_AU.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] tibble_3.1.2 readxl_1.3.1 cluster_2.1.0 dplyr_0.8.5
[5] optparse_1.6.6 rhdf5_2.28.1 mclust_5.4.6 tidyr_1.0.2
[9] data.table_1.14.0 knitr_1.33 kableExtra_1.1.0 workflowr_1.6.2
loaded via a namespace (and not attached):
[1] tidyselect_1.0.0 xfun_0.24 purrr_0.3.4 colorspace_2.0-2
[5] vctrs_0.3.8 htmltools_0.5.1.1 getopt_1.20.3 viridisLite_0.4.0
[9] yaml_2.2.1 utf8_1.2.1 rlang_0.4.11 later_1.0.0
[13] pillar_1.6.1 glue_1.4.2 lifecycle_1.0.0 stringr_1.4.0
[17] cellranger_1.1.0 munsell_0.5.0 rvest_0.3.5 evaluate_0.14
[21] httpuv_1.5.2 fansi_0.5.0 Rcpp_1.0.7 readr_1.3.1
[25] promises_1.1.0 scales_1.1.1 backports_1.2.1 webshot_0.5.2
[29] fs_1.4.1 hms_0.5.3 digest_0.6.27 stringi_1.7.2
[33] rprojroot_1.3-2 tools_3.6.2 magrittr_2.0.1 crayon_1.4.1
[37] whisker_0.4 pkgconfig_2.0.3 ellipsis_0.3.2 xml2_1.3.1
[41] assertthat_0.2.1 rmarkdown_2.1 httr_1.4.1 rstudioapi_0.13
[45] Rhdf5lib_1.6.3 R6_2.5.0 git2r_0.26.1 compiler_3.6.2