darren/reproduce_setup
1
0
Fork 0
Code Issues Pull Requests Actions Packages Projects Releases Wiki Activity

pgx-main from prod added

Browse Source
This commit is contained in:
Darren Wight
2025-08-18 13:09:30 +02:00
parent 75c821b975
commit ce66f54509
918 changed files with 834526 additions and 0 deletions
Download Patch File Download Diff File Expand all files Collapse all files

0
pgx-main/database/cyp4f2/hg38/a_scores.dbs Normal file
View File

120
pgx-main/database/cyp4f2/hg38/diplo_db_debugged2.dbs Normal file
View File

@@ -0,0 +1,120 @@
10.v1_10.v1 15895560~G>T~1/1 15895560~G>T
10.v1_11.v1 15895527~G>A~0/1;15895560~G>T~0/1 15895527~G>A;15895560~G>T
10.v1_12.v1 15892541~C>T~0/1;15895560~G>T~0/1 15892541~C>T;15895560~G>T
10.v1_13.v1 15889671~C>A~0/1;15895560~G>T~0/1 15889671~C>A;15895560~G>T
10.v1_14.v1 15886018~G>C~0/1;15895560~G>T~0/1 15886018~G>C;15895560~G>T
10.v1_15.v1 15879412~C>T~0/1;15895560~G>T~0/1 15879412~C>T;15895560~G>T
10.v1_2.v1 15895560~G>T~0/1;15897578~A>C~0/1 15895560~G>T;15897578~A>C
10.v1_3.v1 15879621~C>T~0/1;15895560~G>T~0/1 15879621~C>T;15895560~G>T
10.v1_4.v1 15879621~C>T~0/1;15895560~G>T~0/1;15897578~A>C~0/1 15879621~C>T;15895560~G>T;15897578~A>C
10.v1_5.v1 15878779~G>T~0/1;15895560~G>T~0/1 15878779~G>T;15895560~G>T
10.v1_6.v1 15890405~C>A~0/1;15895560~G>T~0/1 15890405~C>A;15895560~G>T
10.v1_7.v1 15895560~G>T~0/1;15897566~C>G~0/1 15895560~G>T;15897566~C>G
10.v1_8.v1 15895560~G>T~0/1;15897473~G>A~0/1 15895560~G>T;15897473~G>A
10.v1_9.v1 15895560~G>T~0/1;15897466~C>T~0/1 15895560~G>T;15897466~C>T
11.v1_11.v1 15895527~G>A~1/1 15895527~G>A
11.v1_12.v1 15892541~C>T~0/1;15895527~G>A~0/1 15892541~C>T;15895527~G>A
11.v1_13.v1 15889671~C>A~0/1;15895527~G>A~0/1 15889671~C>A;15895527~G>A
11.v1_14.v1 15886018~G>C~0/1;15895527~G>A~0/1 15886018~G>C;15895527~G>A
11.v1_15.v1 15879412~C>T~0/1;15895527~G>A~0/1 15879412~C>T;15895527~G>A
11.v1_2.v1 15895527~G>A~0/1;15897578~A>C~0/1 15895527~G>A;15897578~A>C
11.v1_3.v1 15879621~C>T~0/1;15895527~G>A~0/1 15879621~C>T;15895527~G>A
11.v1_4.v1 15879621~C>T~0/1;15895527~G>A~0/1;15897578~A>C~0/1 15879621~C>T;15895527~G>A;15897578~A>C
11.v1_5.v1 15878779~G>T~0/1;15895527~G>A~0/1 15878779~G>T;15895527~G>A
11.v1_6.v1 15890405~C>A~0/1;15895527~G>A~0/1 15890405~C>A;15895527~G>A
11.v1_7.v1 15895527~G>A~0/1;15897566~C>G~0/1 15895527~G>A;15897566~C>G
11.v1_8.v1 15895527~G>A~0/1;15897473~G>A~0/1 15895527~G>A;15897473~G>A
11.v1_9.v1 15895527~G>A~0/1;15897466~C>T~0/1 15895527~G>A;15897466~C>T
12.v1_12.v1 15892541~C>T~1/1 15892541~C>T
12.v1_13.v1 15889671~C>A~0/1;15892541~C>T~0/1 15889671~C>A;15892541~C>T
12.v1_14.v1 15886018~G>C~0/1;15892541~C>T~0/1 15886018~G>C;15892541~C>T
12.v1_15.v1 15879412~C>T~0/1;15892541~C>T~0/1 15879412~C>T;15892541~C>T
12.v1_2.v1 15892541~C>T~0/1;15897578~A>C~0/1 15892541~C>T;15897578~A>C
12.v1_3.v1 15879621~C>T~0/1;15892541~C>T~0/1 15879621~C>T;15892541~C>T
12.v1_4.v1 15879621~C>T~0/1;15892541~C>T~0/1;15897578~A>C~0/1 15879621~C>T;15892541~C>T;15897578~A>C
12.v1_5.v1 15878779~G>T~0/1;15892541~C>T~0/1 15878779~G>T;15892541~C>T
12.v1_6.v1 15890405~C>A~0/1;15892541~C>T~0/1 15890405~C>A;15892541~C>T
12.v1_7.v1 15892541~C>T~0/1;15897566~C>G~0/1 15892541~C>T;15897566~C>G
12.v1_8.v1 15892541~C>T~0/1;15897473~G>A~0/1 15892541~C>T;15897473~G>A
12.v1_9.v1 15892541~C>T~0/1;15897466~C>T~0/1 15892541~C>T;15897466~C>T
13.v1_13.v1 15889671~C>A~1/1 15889671~C>A
13.v1_14.v1 15886018~G>C~0/1;15889671~C>A~0/1 15886018~G>C;15889671~C>A
13.v1_15.v1 15879412~C>T~0/1;15889671~C>A~0/1 15879412~C>T;15889671~C>A
13.v1_2.v1 15889671~C>A~0/1;15897578~A>C~0/1 15889671~C>A;15897578~A>C
13.v1_3.v1 15879621~C>T~0/1;15889671~C>A~0/1 15879621~C>T;15889671~C>A
13.v1_4.v1 15879621~C>T~0/1;15889671~C>A~0/1;15897578~A>C~0/1 15879621~C>T;15889671~C>A;15897578~A>C
13.v1_5.v1 15878779~G>T~0/1;15889671~C>A~0/1 15878779~G>T;15889671~C>A
13.v1_6.v1 15889671~C>A~0/1;15890405~C>A~0/1 15889671~C>A;15890405~C>A
13.v1_7.v1 15889671~C>A~0/1;15897566~C>G~0/1 15889671~C>A;15897566~C>G
13.v1_8.v1 15889671~C>A~0/1;15897473~G>A~0/1 15889671~C>A;15897473~G>A
13.v1_9.v1 15889671~C>A~0/1;15897466~C>T~0/1 15889671~C>A;15897466~C>T
14.v1_14.v1 15886018~G>C~1/1 15886018~G>C
14.v1_15.v1 15879412~C>T~0/1;15886018~G>C~0/1 15879412~C>T;15886018~G>C
14.v1_2.v1 15886018~G>C~0/1;15897578~A>C~0/1 15886018~G>C;15897578~A>C
14.v1_3.v1 15879621~C>T~0/1;15886018~G>C~0/1 15879621~C>T;15886018~G>C
14.v1_4.v1 15879621~C>T~0/1;15886018~G>C~0/1;15897578~A>C~0/1 15879621~C>T;15886018~G>C;15897578~A>C
14.v1_5.v1 15878779~G>T~0/1;15886018~G>C~0/1 15878779~G>T;15886018~G>C
14.v1_6.v1 15886018~G>C~0/1;15890405~C>A~0/1 15886018~G>C;15890405~C>A
14.v1_7.v1 15886018~G>C~0/1;15897566~C>G~0/1 15886018~G>C;15897566~C>G
14.v1_8.v1 15886018~G>C~0/1;15897473~G>A~0/1 15886018~G>C;15897473~G>A
14.v1_9.v1 15886018~G>C~0/1;15897466~C>T~0/1 15886018~G>C;15897466~C>T
15.v1_15.v1 15879412~C>T~1/1 15879412~C>T
15.v1_2.v1 15879412~C>T~0/1;15897578~A>C~0/1 15879412~C>T;15897578~A>C
15.v1_3.v1 15879412~C>T~0/1;15879621~C>T~0/1 15879412~C>T;15879621~C>T
15.v1_4.v1 15879412~C>T~0/1;15879621~C>T~0/1;15897578~A>C~0/1 15879412~C>T;15879621~C>T;15897578~A>C
15.v1_5.v1 15878779~G>T~0/1;15879412~C>T~0/1 15878779~G>T;15879412~C>T
15.v1_6.v1 15879412~C>T~0/1;15890405~C>A~0/1 15879412~C>T;15890405~C>A
15.v1_7.v1 15879412~C>T~0/1;15897566~C>G~0/1 15879412~C>T;15897566~C>G
15.v1_8.v1 15879412~C>T~0/1;15897473~G>A~0/1 15879412~C>T;15897473~G>A
15.v1_9.v1 15879412~C>T~0/1;15897466~C>T~0/1 15879412~C>T;15897466~C>T
1.v1_10.v1 15895560~G>T~0/1 15895560~G>T
1.v1_11.v1 15895527~G>A~0/1 15895527~G>A
1.v1_12.v1 15892541~C>T~0/1 15892541~C>T
1.v1_13.v1 15889671~C>A~0/1 15889671~C>A
1.v1_14.v1 15886018~G>C~0/1 15886018~G>C
1.v1_15.v1 15879412~C>T~0/1 15879412~C>T
1.v1_1.v1 ref_diplo ref_diplo
1.v1_2.v1 15897578~A>C~0/1 15897578~A>C
1.v1_3.v1 15879621~C>T~0/1 15879621~C>T
1.v1_4.v1 15879621~C>T~0/1;15897578~A>C~0/1 15879621~C>T;15897578~A>C
1.v1_5.v1 15878779~G>T~0/1 15878779~G>T
1.v1_6.v1 15890405~C>A~0/1 15890405~C>A
1.v1_7.v1 15897566~C>G~0/1 15897566~C>G
1.v1_8.v1 15897473~G>A~0/1 15897473~G>A
1.v1_9.v1 15897466~C>T~0/1 15897466~C>T
2.v1_2.v1 15897578~A>C~1/1 15897578~A>C
2.v1_3.v1 15879621~C>T~0/1;15897578~A>C~0/1 15879621~C>T;15897578~A>C
2.v1_4.v1 15879621~C>T~0/1;15897578~A>C~1/1 15879621~C>T;15897578~A>C
2.v1_5.v1 15878779~G>T~0/1;15897578~A>C~0/1 15878779~G>T;15897578~A>C
2.v1_6.v1 15890405~C>A~0/1;15897578~A>C~0/1 15890405~C>A;15897578~A>C
2.v1_7.v1 15897566~C>G~0/1;15897578~A>C~0/1 15897566~C>G;15897578~A>C
2.v1_8.v1 15897473~G>A~0/1;15897578~A>C~0/1 15897473~G>A;15897578~A>C
2.v1_9.v1 15897466~C>T~0/1;15897578~A>C~0/1 15897466~C>T;15897578~A>C
3.v1_3.v1 15879621~C>T~1/1 15879621~C>T
3.v1_4.v1 15879621~C>T~1/1;15897578~A>C~0/1 15879621~C>T;15897578~A>C
3.v1_5.v1 15878779~G>T~0/1;15879621~C>T~0/1 15878779~G>T;15879621~C>T
3.v1_6.v1 15879621~C>T~0/1;15890405~C>A~0/1 15879621~C>T;15890405~C>A
3.v1_7.v1 15879621~C>T~0/1;15897566~C>G~0/1 15879621~C>T;15897566~C>G
3.v1_8.v1 15879621~C>T~0/1;15897473~G>A~0/1 15879621~C>T;15897473~G>A
3.v1_9.v1 15879621~C>T~0/1;15897466~C>T~0/1 15879621~C>T;15897466~C>T
4.v1_4.v1 15879621~C>T~1/1;15897578~A>C~1/1 15879621~C>T;15897578~A>C
4.v1_5.v1 15878779~G>T~0/1;15879621~C>T~0/1;15897578~A>C~0/1 15878779~G>T;15879621~C>T;15897578~A>C
4.v1_6.v1 15879621~C>T~0/1;15890405~C>A~0/1;15897578~A>C~0/1 15879621~C>T;15890405~C>A;15897578~A>C
4.v1_7.v1 15879621~C>T~0/1;15897566~C>G~0/1;15897578~A>C~0/1 15879621~C>T;15897566~C>G;15897578~A>C
4.v1_8.v1 15879621~C>T~0/1;15897473~G>A~0/1;15897578~A>C~0/1 15879621~C>T;15897473~G>A;15897578~A>C
4.v1_9.v1 15879621~C>T~0/1;15897466~C>T~0/1;15897578~A>C~0/1 15879621~C>T;15897466~C>T;15897578~A>C
5.v1_5.v1 15878779~G>T~1/1 15878779~G>T
5.v1_6.v1 15878779~G>T~0/1;15890405~C>A~0/1 15878779~G>T;15890405~C>A
5.v1_7.v1 15878779~G>T~0/1;15897566~C>G~0/1 15878779~G>T;15897566~C>G
5.v1_8.v1 15878779~G>T~0/1;15897473~G>A~0/1 15878779~G>T;15897473~G>A
5.v1_9.v1 15878779~G>T~0/1;15897466~C>T~0/1 15878779~G>T;15897466~C>T
6.v1_6.v1 15890405~C>A~1/1 15890405~C>A
6.v1_7.v1 15890405~C>A~0/1;15897566~C>G~0/1 15890405~C>A;15897566~C>G
6.v1_8.v1 15890405~C>A~0/1;15897473~G>A~0/1 15890405~C>A;15897473~G>A
6.v1_9.v1 15890405~C>A~0/1;15897466~C>T~0/1 15890405~C>A;15897466~C>T
7.v1_7.v1 15897566~C>G~1/1 15897566~C>G
7.v1_8.v1 15897473~G>A~0/1;15897566~C>G~0/1 15897473~G>A;15897566~C>G
7.v1_9.v1 15897466~C>T~0/1;15897566~C>G~0/1 15897466~C>T;15897566~C>G
8.v1_8.v1 15897473~G>A~1/1 15897473~G>A
8.v1_9.v1 15897466~C>T~0/1;15897473~G>A~0/1 15897466~C>T;15897473~G>A
9.v1_9.v1 15897466~C>T~1/1 15897466~C>T

14
pgx-main/database/cyp4f2/hg38/genotypes4.dbs Normal file
View File

@@ -0,0 +1,14 @@
1.v1_4.v1 1.001_4.001 15879621~C>T~0/1;15897578~A>C~0/1 15879621~C>T~0/1;15895603~G>A~0/1;15897447~T>C~0/1;15897578~A>C~0/1;15898317~G>T~0/1
1.v1_4.v1 1.002_4.001 15879621~C>T~0/1;15897578~A>C~0/1 15878595~C>T~0/1;15879621~C>T~0/1;15895603~G>A~0/1;15897447~T>C~0/1;15897578~A>C~0/1;15898317~G>T~0/1
1.v1_4.v1 1.003_4.001 15879621~C>T~0/1;15897578~A>C~0/1 15878595~C>T~0/1;15879621~C>T~0/1;15886010~G>A~0/1;15895603~G>A~0/1;15897447~T>C~0/1;15897578~A>C~0/1;15898317~G>T~0/1
1.v1_4.v1 1.004_4.001 15879621~C>T~0/1;15897578~A>C~0/1 15878595~C>T~0/1;15878644~A>G~0/1;15879621~C>T~0/1;15886010~G>A~0/1;15895603~G>A~0/1;15897447~T>C~0/1;15897578~A>C~0/1;15898317~G>T~0/1
1.v1_4.v1 1.005_4.001 15879621~C>T~0/1;15897578~A>C~0/1 15879621~C>T~0/1;15895603~G>A~0/1;15897447~T>C~1/1;15897578~A>C~0/1;15898317~G>T~0/1
1.v1_4.v1 1.006_4.001 15879621~C>T~0/1;15897578~A>C~0/1 15879621~C>T~0/1;15895603~G>A~0/1;15897447~T>C~0/1;15897578~A>C~0/1;15898053~C>T~0/1;15898317~G>T~0/1
2.v1_3.v1 2.001_3.001 15879621~C>T~0/1;15897578~A>C~0/1 15879621~C>T~0/1;15895603~G>A~0/1;15897447~T>C~0/1;15897578~A>C~0/1;15898317~G>T~0/1;15898323~G>A~0/1;15898324~G>T~0/1
2.v1_3.v1 2.002_3.001 15879621~C>T~0/1;15897578~A>C~0/1 15879621~C>T~0/1;15895513~G>A~0/1;15895570~T>G~0/1;15897447~T>C~0/1;15897578~A>C~0/1;15898323~G>A~0/1;15898324~G>T~0/1
2.v1_3.v1 2.001_3.002 15879621~C>T~0/1;15897578~A>C~0/1 15878595~C>T~0/1;15879621~C>T~0/1;15895603~G>A~0/1;15897447~T>C~0/1;15897578~A>C~0/1;15898317~G>T~0/1;15898323~G>A~0/1;15898324~G>T~0/1
2.v1_3.v1 2.001_3.003 15879621~C>T~0/1;15897578~A>C~0/1 15878699~G>T~0/1;15879621~C>T~0/1;15895603~G>A~0/1;15897447~T>C~0/1;15897578~A>C~0/1;15898317~G>T~0/1;15898323~G>A~0/1;15898324~G>T~0/1
2.v1_3.v1 2.001_3.004 15879621~C>T~0/1;15897578~A>C~0/1 15879621~C>T~0/1;15885962~T>C~0/1;15895603~G>A~0/1;15897447~T>C~0/1;15897578~A>C~0/1;15898317~G>T~0/1;15898323~G>A~0/1;15898324~G>T~0/1
2.v1_3.v1 2.002_3.002 15879621~C>T~0/1;15897578~A>C~0/1 15878595~C>T~0/1;15879621~C>T~0/1;15895513~G>A~0/1;15895570~T>G~0/1;15897447~T>C~0/1;15897578~A>C~0/1;15898323~G>A~0/1;15898324~G>T~0/1
2.v1_3.v1 2.002_3.003 15879621~C>T~0/1;15897578~A>C~0/1 15878699~G>T~0/1;15879621~C>T~0/1;15895513~G>A~0/1;15895570~T>G~0/1;15897447~T>C~0/1;15897578~A>C~0/1;15898323~G>A~0/1;15898324~G>T~0/1
2.v1_3.v1 2.002_3.004 15879621~C>T~0/1;15897578~A>C~0/1 15879621~C>T~0/1;15885962~T>C~0/1;15895513~G>A~0/1;15895570~T>G~0/1;15897447~T>C~0/1;15897578~A>C~0/1;15898323~G>A~0/1;15898324~G>T~0/1

15
pgx-main/database/cyp4f2/hg38/haps_var_new.dbs Normal file
View File

@@ -0,0 +1,15 @@
*10 10.v1 15895560~G>T
*11 11.v1 15895527~G>A
*12 12.v1 15892541~C>T
*13 13.v1 15889671~C>A
*14 14.v1 15886018~G>C
*15 15.v1 15879412~C>T
*1 1.v1 ref_haplo
*2 2.v1 15897578~A>C
*3 3.v1 15879621~C>T
*4 4.v1 15879621~C>T;15897578~A>C
*5 5.v1 15878779~G>T
*6 6.v1 15890405~C>A
*7 7.v1 15897566~C>G
*8 8.v1 15897473~G>A
*9 9.v1 15897466~C>T