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Altius Institute

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perl eforge.pl -f input.txt --web https://forge2.altiusinstitute.org/ --format probeid --bkgd GWAS --data erc --proxy 1kb --reps 1000 --thresh 0.05,0.01
[Mon May 4 23:47:21 2020] DBD::SQLite plugin version: 3.22.0 [Mon May 4 23:47:21 2020] Processing input... Applying LD filter... (r08) rs13146355 excluded for LD at >= r08 with rs10008637 rs3904941 excluded for LD at >= r08 with rs10753629 rs10994856 excluded for LD at >= r08 with rs10821907 rs10998009 excluded for LD at >= r08 with rs10823156 rs7956634 excluded for LD at >= r08 with rs10846157 rs12509595 excluded for LD at >= r08 with rs10857147 rs4459768 excluded for LD at >= r08 with rs10865282 rs2047866 excluded for LD at >= r08 with rs11072567 rs138107037 excluded for LD at >= r08 with rs11951093 rs3776712 excluded for LD at >= r08 with rs12186509 rs34611728 excluded for LD at >= r08 with rs12722725 rs62435145 excluded for LD at >= r08 with rs13230509 rs6880621 excluded for LD at >= r08 with rs1371810 rs2039424 excluded for LD at >= r08 with rs1556751 rs12509595 excluded for LD at >= r08 with rs16998073 rs5758884 excluded for LD at >= r08 with rs2143919 rs5758891 excluded for LD at >= r08 with rs2143919 rs2453583 excluded for LD at >= r08 with rs2252281 rs2453583 excluded for LD at >= r08 with rs2453584 rs6145546 excluded for LD at >= r08 with rs2467853 rs7635449 excluded for LD at >= r08 with rs2877569 rs8037708 excluded for LD at >= r08 with rs28833881 rs8026743 excluded for LD at >= r08 with rs28833881 rs2921060 excluded for LD at >= r08 with rs2921051 rs487107 excluded for LD at >= r08 with rs303937 rs35610898 excluded for LD at >= r08 with rs33921462 rs7974833 excluded for LD at >= r08 with rs3741414 rs35610898 excluded for LD at >= r08 with rs3812035 rs6862195 excluded for LD at >= r08 with rs3812035 rs4667594 excluded for LD at >= r08 with rs3815573 rs4821764 excluded for LD at >= r08 with rs4820323 rs7007761 excluded for LD at >= r08 with rs4871905 rs71559067 excluded for LD at >= r08 with rs61742093 rs760077 excluded for LD at >= r08 with rs6676150 rs4667594 excluded for LD at >= r08 with rs755631 The following 50 DMPs have not been analysed because they were not found on the selected array rs375125008 rs112702219 rs70991537 rs55951234 rs66689022 rs1264351 rs111770942 rs5812700 rs36082259 rs199796575 rs200950799 rs35077430 rs1264347 rs66684608 refsnp_id rs3132374 rs547160925 rs2143668 rs11442179 rs2105903 rs150289149 rs2517601 rs140582693 rs11296991 rs35505876 rs2421556 rs10715507 rs10687766 rs60307791 rs112578436 rs3101823 rs1233493 rs566071263 rs201777573 rs149165215 rs334 rs539633309 rs532086 rs2023463 rs200210321 rs200777151 rs145590578 rs371570792 rs71126982 rs35870583 rs541524196 rs2923008 rs36053385 rs10179584 rs10587862 For Unnamed, 247 SNPs provided, 166 retained: 50 were not found and 31 excluded using LD-based: r08 filter. [Mon May 4 23:47:38 2020] Loading the GWAS background... [Mon May 4 23:47:39 2020] Running the analysis with 166 DMPs... Random pick #43 only has 165 probes compared to 166 in the input set. Random pick #157 only has 165 probes compared to 166 in the input set. Random pick #206 only has 165 probes compared to 166 in the input set. Random pick #272 only has 165 probes compared to 166 in the input set. Random pick #287 only has 165 probes compared to 166 in the input set. Random pick #314 only has 165 probes compared to 166 in the input set. Random pick #331 only has 165 probes compared to 166 in the input set. Random pick #356 only has 165 probes compared to 166 in the input set. Random pick #439 only has 165 probes compared to 166 in the input set. Random pick #455 only has 165 probes compared to 166 in the input set. Random pick #532 only has 165 probes compared to 166 in the input set. Random pick #547 only has 165 probes compared to 166 in the input set. Random pick #560 only has 165 probes compared to 166 in the input set. Random pick #573 only has 165 probes compared to 166 in the input set. Random pick #588 only has 165 probes compared to 166 in the input set. Random pick #785 only has 165 probes compared to 166 in the input set. Random pick #820 only has 165 probes compared to 166 in the input set. Random pick #917 only has 165 probes compared to 166 in the input set. Random pick #936 only has 165 probes compared to 166 in the input set. Random pick #992 only has 165 probes compared to 166 in the input set. [Mon May 4 23:49:52 2020] All repetitions done. [Mon May 4 23:49:52 2020] Calculating p-values... [Mon May 4 23:49:52 2020] Generating plots... [Mon May 4 23:49:52 2020] Charting against dataset [erc]... Making generic static chart. null device 1 Making dChart. Loading required package: rCharts Making Table. Loading required package: rCharts [Mon May 4 23:49:54 2020] Done.
URL: https://forge2.altiusinstitute.org/files/0x454A546E8E9C11EA8198793F5BFE3F98/index.html

Results

▸ Input data (txt.gz)
▸ Raw data (tsv.gz)
▸ Static chart (PDF)
▸ Interactive chart (HTML)
▸ Interactive table (HTML)
▸ R code for re-generating these files: [PDF] [chart] [table]

Interactive table