Update overlap of enhancers.

intervene_test/All_enhancers.bed

+chr1	10637998	10639932
+chr1	31970399	31971645
 chr1	37200778	37206023
-chr1	37229418	37232583
-chr1	40609355	40609784
-chr1	53877395	53885111
-chr1	90661670	90666833
-chr1	104776928	104779695
+chr1	37233810	37239596
+chr1	38898359	38898567
+chr1	48713700	48715122
+chr1	55384008	55385578
+chr1	62673723	62674931
+chr1	62694553	62694854
+chr1	62695611	62695921
+chr1	80160570	80161070
+chr1	100408653	100410307
 chr1	113759038	113763718
-chr1	160597972	160601710
-chr1	160620451	160621968
-chr1	160622788	160624877
-chr1	163582857	163584297
-chr1	163584925	163585208
+chr1	147038733	147042208
+chr1	163566420	163567013
 chr1	164692273	164694863
-chr1	167313864	167314509
-chr1	193557433	193559455
+chr1	192762688	192763739
 chr1	198757277	198758561
-chr1	208602429	208605747
+chr1	210544403	210547374
 chr1	214248036	214250067
 chr1	223184189	223185188
 chr1	223192204	223197863
 chr1	223203768	223208115
 chr1	232259668	232260231
 chr1	232264497	232268604
+chr10	8113912	8114920
+chr10	8116911	8118129
 chr10	16933472	16934314
-chr10	21615691	21616796
-chr10	25929151	25929620
-chr10	31966293	31967226
-chr10	51541114	51545014
+chr10	21283742	21286477
+chr10	23341904	23342467
+chr10	23344061	23345405
+chr10	55117323	55118620
+chr10	55233490	55233705
 chr10	55236131	55237492
-chr10	59387350	59391316
+chr10	55239535	55239815
+chr10	92062538	92063136
+chr10	94956403	94957116
 chr10	94957982	94959629
-chr10	104974944	104975706
-chr10	119120591	119120804
-chr10	121886513	121887865
-chr11	23713373	23715371
+chr10	95032367	95034780
+chr10	134964032	134964578
+chr10	134965240	134966268
+chr11	12736926	12741483
 chr11	27646701	27647226
 chr11	27649568	27649892
-chr11	85883190	85886065
-chr11	92805063	92809315
-chr11	92809916	92811409
-chr11	92815114	92817510
+chr11	63294833	63295523
+chr11	63296326	63297898
+chr11	67524759	67524976
+chr11	67526018	67527015
+chr11	67532697	67533467
+chr11	83140085	83141415
+chr11	83145867	83146196
+chr11	83147873	83148579
+chr11	87772560	87776007
+chr11	118585751	118586934
 chr11	134599884	134604068
+chr12	7949108	7949315
+chr12	7949992	7951056
+chr12	7951886	7952201
+chr12	14857811	14858435
 chr12	42326469	42327793
-chr12	66454211	66458674
+chr12	59715939	59716921
+chr12	59723402	59724595
 chr12	81169424	81171060
+chr12	81172484	81172938
+chr12	95967658	95969106
+chr12	115093676	115098063
+chr12	115100081	115101275
 chr12	132105891	132107515
 chr12	132108108	132108822
 chr12	132109580	132110876
+chr12	132112858	132114001
+chr13	20368839	20369241
+chr13	34313207	34314139
+chr13	44379094	44379325
+chr13	44380067	44380266
 chr13	51749097	51750221
+chr13	51817438	51819175
+chr13	54700494	54701361
 chr13	54708024	54708344
+chr13	54875435	54876055
 chr13	54878323	54880794
-chr13	54884982	54885298
 chr13	61661835	61662562
 chr13	61668715	61669718
+chr13	63748241	63748446
+chr13	63749700	63749979
 chr13	70257921	70259556
-chr13	70260839	70261142
+chr13	73746237	73748622
+chr13	73749313	73749571
+chr13	87535081	87536205
 chr13	110320014	110322744
-chr14	38657547	38659917
+chr14	21342163	21342508
+chr14	35023367	35024467
+chr14	35815995	35818035
+chr14	35819134	35819695
+chr14	35821012	35822338
+chr14	38666134	38667519
+chr14	38668372	38668718
+chr14	38670591	38670894
+chr14	65691432	65694456
 chr14	68925493	68926561
+chr14	74823666	74829873
+chr14	74830528	74832375
+chr14	87699267	87700449
 chr14	99440201	99441189
-chr14	101157246	101163470
 chr14	101771257	101771716
-chr14	103439850	103440128
+chr14	103051166	103052393
+chr15	39308143	39308939
+chr15	54100647	54103599
+chr15	54104323	54104601
+chr15	54208319	54211872
+chr15	65587894	65588253
+chr15	65588760	65589111
+chr15	65595891	65596514
+chr15	65597370	65597642
 chr15	75052095	75052397
-chr16	70823682	70825837
+chr15	89106165	89118652
+chr15	89151998	89157780
+chr15	89158310	89159274
+chr16	33966276	33966480
+chr16	47099575	47101338
+chr16	70441509	70443179
+chr16	70648126	70649156
 chr16	79445370	79446872
-chr16	79451243	79452273
+chr16	81118924	81119200
+chr16	83919561	83922545
+chr17	7033948	7037712
+chr17	7203864	7204048
 chr17	10897582	10900087
-chr17	10904199	10909547
-chr17	69823475	69824557
-chr17	69826511	69827264
+chr17	19334068	19335781
+chr17	19336510	19338322
+chr17	19339207	19341041
+chr17	41484073	41485793
+chr17	57372286	57374757
+chr18	311752	315285
+chr18	6597116	6599787
+chr18	19605370	19607977
+chr18	22597871	22599491
+chr18	22600133	22601368
+chr18	32935375	32935853
+chr18	39473975	39474368
 chr18	42283414	42290388
-chr18	60732710	60732885
-chr18	70706189	70711290
-chr18	73350460	73351006
-chr2	14540589	14543435
+chr18	46487101	46490967
+chr19	23361604	23362588
+chr19	23363973	23365145
+chr19	23905024	23906571
+chr19	23907415	23907804
+chr19	46156738	46157510
+chr19	46741776	46744123
+chr19	46768884	46769183
+chr19	54097281	54099771
+chr19	54273773	54274502
+chr19	54275843	54277693
+chr19	54278198	54279550
+chr19	54340569	54340863
+chr2	25451578	25455046
+chr2	37051278	37051639
 chr2	64485116	64486896
 chr2	64488877	64490360
 chr2	64493874	64496302
 chr2	65102598	65103857
-chr2	67557273	67557517
 chr2	67558386	67558740
 chr2	67564627	67564924
 chr2	70016299	70018435
-chr2	81621100	81622257
+chr2	76674297	76674720
+chr2	77329104	77329560
+chr2	80458232	80460009
+chr2	84011986	84016011
+chr2	113657759	113658917
+chr2	133034417	133034765
 chr2	151714757	151717308
-chr2	153669772	153670564
-chr2	153672279	153673412
-chr2	171996347	171997216
+chr2	181009877	181010288
 chr2	190081406	190082910
+chr2	203208986	203209363
 chr2	210163286	210163663
+chr2	218082322	218083350
+chr2	222458373	222459712
 chr2	227341834	227343480
-chr2	231377168	231378586
-chr20	4063304	4064347
-chr20	22663874	22665958
-chr20	23849819	23852358
+chr2	238505175	238513412
+chr20	23189333	23193743
+chr20	23512713	23515548
+chr20	25523940	25531122
+chr20	31537329	31537687
+chr20	31538594	31539516
 chr20	31560641	31561060
 chr20	31561904	31566122
+chr20	46920102	46921845
 chr20	46922936	46925198
+chr20	52367446	52370320
+chr20	52370880	52371523
+chr20	52383647	52387088
 chr20	57194193	57194696
-chr22	20189172	20196823
-chr22	28122539	28124086
-chr22	28124693	28125646
+chr21	34755296	34755819
+chr21	44355472	44356788
+chr21	44357411	44359981
+chr21	44361737	44362238
+chr21	44374603	44376350
+chr21	44376872	44378485
+chr22	18935253	18936518
 chr3	37572562	37573578
-chr3	57022578	57026897
+chr3	57977200	57980189
+chr3	60768597	60769161
+chr3	60770542	60771650
 chr3	66869667	66871342
+chr3	101354612	101363397
+chr3	124476940	124478414
+chr3	124480389	124482656
 chr3	149958350	149959503
 chr3	149960380	149960815
-chr3	176048228	176048796
-chr3	176050775	176051223
-chr3	187707241	187708041
+chr3	164038697	164039326
+chr3	164046619	164047738
+chr3	181540692	181543092
+chr3	187636167	187637102
 chr3	189867978	189869868
 chr3	191612021	191612895
-chr3	196514431	196515814
-chr4	8352257	8355417
-chr4	8358124	8359856
-chr4	24322362	24324926
+chr4	8395253	8396481
 chr4	58148441	58149321
+chr4	69278739	69278935
+chr4	69279673	69279919
 chr4	88856117	88857085
-chr4	104295132	104295740
-chr4	104296402	104296895
+chr4	140077866	140079191
+chr4	151956078	151956992
+chr4	165820153	165820536
+chr4	165822366	165822814
 chr4	180085903	180086441
-chr4	180091874	180092730
 chr5	9599516	9603491
+chr5	9832016	9835945
 chr5	18658243	18658461
-chr5	35336988	35337782
-chr5	35338580	35339320
+chr5	18737081	18737748
 chr5	38299813	38301539
-chr5	64016761	64017183
-chr5	85940223	85943178
+chr5	100656199	100657118
+chr5	103012113	103012949
+chr5	116386552	116386875
 chr5	123908679	123913058
-chr5	145008344	145008926
+chr5	132328129	132328364
+chr5	142087769	142088108
 chr5	147239606	147240167
-chr5	155277166	155277873
-chr5	174538331	174539398
-chr6	2926034	2926780
-chr6	2928762	2928982
+chr5	175133482	175134290
+chr6	16803885	16804263
+chr6	16805161	16806152
 chr6	17721811	17722444
+chr6	27136416	27136893
+chr6	33339875	33341318
 chr6	94539190	94539443
-chr6	106908368	106908812
-chr6	106909512	106909740
-chr6	135587840	135593345
-chr6	158939208	158939679
-chr6	167853266	167856429
+chr6	100692268	100694485
+chr6	106901773	106902080
+chr6	110176335	110177039
+chr6	121815498	121816055
+chr6	130051528	130053494
+chr7	2913052	2913486
 chr7	9243836	9244237
-chr7	15054999	15055748
-chr7	21208758	21210315
+chr7	20865869	20866538
+chr7	22741387	22742985
+chr7	22904594	22905020
+chr7	26040981	26041917
+chr7	26043549	26044868
+chr7	26045394	26048563
+chr7	26696441	26699348
+chr7	43147809	43148083
+chr7	45599465	45599915
 chr7	70921608	70924059
 chr7	75423908	75424490
+chr7	75425000	75428509
 chr7	117993577	117993835
-chr7	123438479	123439029
-chr7	129911487	129914212
-chr7	129914798	129915524
+chr7	137851188	137851398
+chr7	137851989	137854457
+chr7	137855084	137856423
 chr7	137927470	137927672
-chr7	137929108	137932186
-chr7	155966207	155966420
-chr8	8439992	8441038
-chr8	24432366	24434201
+chr7	139550436	139556172
+chr7	148661408	148661888
+chr7	154897869	154901512
+chr8	4371634	4374114
+chr8	4374746	4375009
+chr8	9038932	9041374
+chr8	9042157	9043327
 chr8	24623818	24626448
 chr8	55124166	55125371
-chr8	61480564	61481448
+chr8	55180015	55182101
+chr8	55182647	55183084
 chr8	72620002	72620767
-chr8	83568905	83569149
 chr8	86508352	86510419
-chr8	102016144	102016508
-chr8	138427604	138427854
+chr8	108568099	108568462
+chr8	108569301	108569547
+chr8	132329601	132331588
 chr8	138472601	138473563
+chr8	138474246	138476590
 chr9	3810350	3810810
 chr9	3816664	3817206
-chr9	25287931	25288274
+chr9	6019475	6020045
+chr9	14731725	14732460
+chr9	21581033	21581321
 chr9	31030585	31031254
-chr9	90042912	90044613
+chr9	34362477	34365692
+chr9	75665810	75666349
+chr9	90032694	90033604
+chr9	96115536	96116214
 chr9	96117890	96119609
+chr9	101026828	101027759
 chr9	101033738	101034711
+chr9	102958700	102960158
+chr9	116046824	116047513
 chr9	117788780	117793558
 chr9	118242282	118242605
-chr9	129280632	129284312
-chrX	13323678	13324000
-chrX	20603363	20603926
-chrX	40330924	40332036
-chrX	40332637	40337013
+chrX	16166390	16167532
+chrX	16168482	16169697
+chrX	16602860	16605118
+chrX	38924392	38926547
+chrX	41148116	41148317
+chrX	41150811	41151396
 chrX	102678291	102679623
-chrX	124520695	124520934
-chrX	146457893	146459008
+chrX	103009325	103014543
+chrX	103015506	103016190
+chrX	103022185	103024450
+chrX	113293363	113295677
+chrX	136506447	136508462
+chrX	136509374	136511364
+chrX	136512956	136513439
+chrX	143856482	143857247

intervene_test/intervene_figure.sh

@@ -13,8 +13,9 @@ intervene upset -i *enhancers.bed --filename --order degree  --sxlabel "No. of U
 
 
 # All called example:
-chr10:51,534,904-51,592,022
-chr12:131,332,043-131,362,365
+chr18:46,445,713-46,491,500
 
-Maybe:
-chr13:28,405,807-28,514,065
+# Only Histone example:
+chr3:38,959,553-39,174,357
+
+# Only GRO-seq