consenrich 0.7.4b2__cp312-cp312-macosx_10_13_x86_64.whl

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Files changed (37) hide show
  1. consenrich/__init__.py +11 -0
  2. consenrich/cconsenrich.c +48685 -0
  3. consenrich/cconsenrich.cpython-312-darwin.so +0 -0
  4. consenrich/cconsenrich.pyx +861 -0
  5. consenrich/consenrich.py +1381 -0
  6. consenrich/constants.py +172 -0
  7. consenrich/core.py +1428 -0
  8. consenrich/data/ce10.sizes +6 -0
  9. consenrich/data/ce10_blacklist.bed +100 -0
  10. consenrich/data/ce10_sparse.bed +11828 -0
  11. consenrich/data/ce11.sizes +6 -0
  12. consenrich/data/ce11_blacklist.bed +97 -0
  13. consenrich/data/ce11_sparse.bed +11828 -0
  14. consenrich/data/dm6.sizes +7 -0
  15. consenrich/data/dm6_blacklist.bed +182 -0
  16. consenrich/data/dm6_sparse.bed +20000 -0
  17. consenrich/data/hg19.sizes +24 -0
  18. consenrich/data/hg19_blacklist.bed +834 -0
  19. consenrich/data/hg19_sparse.bed +288358 -0
  20. consenrich/data/hg38.sizes +24 -0
  21. consenrich/data/hg38_blacklist.bed +636 -0
  22. consenrich/data/hg38_sparse.bed +288699 -0
  23. consenrich/data/mm10.sizes +21 -0
  24. consenrich/data/mm10_blacklist.bed +3435 -0
  25. consenrich/data/mm10_sparse.bed +100400 -0
  26. consenrich/data/mm39.sizes +21 -0
  27. consenrich/data/mm39_blacklist.bed +3360 -0
  28. consenrich/data/mm39_sparse.bed +100381 -0
  29. consenrich/detrorm.py +249 -0
  30. consenrich/matching.py +901 -0
  31. consenrich/misc_util.py +122 -0
  32. consenrich-0.7.4b2.dist-info/METADATA +65 -0
  33. consenrich-0.7.4b2.dist-info/RECORD +37 -0
  34. consenrich-0.7.4b2.dist-info/WHEEL +6 -0
  35. consenrich-0.7.4b2.dist-info/entry_points.txt +2 -0
  36. consenrich-0.7.4b2.dist-info/licenses/LICENSE +21 -0
  37. consenrich-0.7.4b2.dist-info/top_level.txt +1 -0
consenrich/data/ce11.sizes ADDED
@@ -0,0 +1,6 @@
1
+ chrI 15072434
2
+ chrII 15279421
3
+ chrIII 13783801
4
+ chrIV 17493829
5
+ chrV 20924180
6
+ chrX 17718942
consenrich/data/ce11_blacklist.bed ADDED
@@ -0,0 +1,97 @@
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+ chrI 669000 679200
2
+ chrI 931700 935600
3
+ chrI 3170700 3173300
4
+ chrI 3989200 3991600
5
+ chrI 4535300 4549400
6
+ chrI 5151000 5154700
7
+ chrI 10203200 10220100
8
+ chrI 10265700 10277700
9
+ chrI 10945100 10953900
10
+ chrI 15059400 15072400
11
+ chrII 0 1300
12
+ chrII 2569700 2571800
13
+ chrII 3464700 3469600
14
+ chrII 3795600 3798100
15
+ chrII 3993700 3995700
16
+ chrII 4640300 4645900
17
+ chrII 5143800 5147500
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+ chrII 6504500 6509800
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+ chrII 8286700 8293600
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+ chrII 8975300 8977500
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+ chrII 9631500 9633800
22
+ chrII 10335100 10339700
23
+ chrII 11527200 11530900
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+ chrII 12842900 12846900
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+ chrII 13597800 13600800
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+ chrII 13984000 13987600
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+ chrII 14323700 14340100
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+ chrII 14992200 14994400
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+ chrIII 449400 453600
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+ chrIII 930300 932600
31
+ chrIII 1016500 1021500
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+ chrIII 1293500 1303900
33
+ chrIII 5352200 5359400
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+ chrIII 7404700 7452200
35
+ chrIII 7593800 7598100
36
+ chrIII 8861200 8864800
37
+ chrIII 10216000 10228500
38
+ chrIII 13775200 13783800
39
+ chrIV 2821100 2831500
40
+ chrIV 3205500 3210300
41
+ chrIV 3365800 3368800
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+ chrIV 4415600 4422800
43
+ chrIV 6357100 6361700
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+ chrIV 6468100 6470600
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+ chrIV 6682700 6704200
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+ chrIV 7590800 7600100
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+ chrIV 8563000 8582600
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+ chrIV 9045100 9049600
49
+ chrIV 10942600 10951900
50
+ chrIV 11070000 11076700
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+ chrIV 12023000 12025800
52
+ chrIV 12313600 12325600
53
+ chrIV 12637100 12639500
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+ chrIV 13359700 13362800
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+ chrIV 13548500 13550500
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+ chrIV 14056400 14059900
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+ chrIV 14775600 14782300
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+ chrIV 15076800 15082900
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+ chrIV 15408500 15424900
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+ chrV 264100 268100
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+ chrV 1103700 1106100
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+ chrV 1637000 1639900
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+ chrV 3098000 3100400
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+ chrV 3434100 3441600
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+ chrV 5278300 5286800
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+ chrV 6171000 6183700
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+ chrV 6936700 6943900
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+ chrV 7912300 7925700
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+ chrV 7988100 7993700
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+ chrV 8698700 8715700
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+ chrV 9423500 9436100
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+ chrV 10604900 10613200
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+ chrV 12509100 12511300
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+ chrV 14765800 14770600
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+ chrV 16706300 16710300
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+ chrV 17114600 17133000
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+ chrV 17307800 17312400
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+ chrV 17383300 17395200
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+ chrV 18399500 18402500
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+ chrX 108300 115100
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+ chrX 273800 296200
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+ chrX 1635300 1645200
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+ chrX 1747400 1755900
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+ chrX 3006400 3008800
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+ chrX 4025200 4056900
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+ chrX 5045000 5058200
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+ chrX 7076600 7081600
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+ chrX 9184200 9189600
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+ chrX 9437700 9440000
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+ chrX 10360300 10370000
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+ chrX 11784800 11790400
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+ chrX 11885700 11889700
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+ chrX 12275900 12280400
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+ chrX 14907200 14910300
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+ chrX 15226200 15229600
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+ chrX 15806400 15812100
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+ chrX 16758000 16761600