fix tables

countTable_UTRPolysomes_ERCC_21Nov2017.txt

-ERCC	2and3Hc2	2and3Hc3	4and5Hc2	4and5Hc3	6and7Hc2	6and7Hc3	80SHc2	80SHc3	InputHc2	InputHc3	bigger7Hc2	bigger7Hc3
-ERCC-00002	9140	12382	15199	9748	11895	9531	3575	6079	31329	26857	26377	9934
-ERCC-00003	382	456	632	280	374	300	106	152	1438	1280	957	233
-ERCC-00004	3920	4865	6757	3681	4579	3910	1274	1961	13739	11403	11893	3558
-ERCC-00009	346	439	551	392	464	401	143	220	1193	992	1055	374
-ERCC-00012	7	16	21	24	24	7	3	1	5	9	17	8
-ERCC-00013	6	2	3	4	5	2	0	2	2	5	4	3
-ERCC-00014	1	0	1	1	2	2	0	1	2	4	0	4
-ERCC-00016	0	2	0	2	3	0	0	0	1	2	0	0
-ERCC-00017	9	9	7	19	8	6	1	4	5	2	6	3
-ERCC-00019	27	29	43	23	43	43	10	14	73	51	48	28
-ERCC-00022	114	148	170	111	127	100	35	70	345	284	372	150
-ERCC-00024	6	4	4	1	2	4	2	4	4	5	9	1
-ERCC-00025	28	40	44	37	35	20	11	20	83	77	109	31
-ERCC-00028	4	7	3	6	6	0	2	4	8	7	6	3
-ERCC-00031	0	0	0	1	0	0	0	0	3	1	2	0
-ERCC-00033	1	1	0	1	0	0	2	0	5	2	4	0
-ERCC-00034	21	22	22	16	15	12	13	14	37	19	19	3
-ERCC-00035	39	51	63	39	54	51	8	23	134	102	119	41
-ERCC-00039	4	2	3	1	0	0	0	1	4	6	4	3
-ERCC-00040	3	5	3	1	5	3	0	0	1	2	4	4
-ERCC-00042	256	349	443	261	314	242	94	137	880	806	881	280
-ERCC-00043	193	238	305	118	141	105	36	74	767	632	335	86
-ERCC-00044	57	72	88	48	65	60	21	27	178	152	166	44
-ERCC-00046	2446	2708	4260	1997	2564	2193	772	1024	9161	7814	7827	1669
-ERCC-00048	3	4	4	1	10	10	1	2	4	0	13	1
-ERCC-00051	17	17	34	11	18	18	5	6	77	51	63	18
-ERCC-00053	13	12	33	13	9	9	2	5	55	57	28	10
-ERCC-00054	10	16	16	18	12	14	1	10	31	31	47	22
-ERCC-00058	2	4	2	3	3	4	1	0	8	4	3	3
-ERCC-00059	3	10	20	7	7	3	3	6	31	25	34	14
-ERCC-00060	167	238	328	163	181	152	63	80	677	534	560	134
-ERCC-00062	43	55	81	41	53	29	11	11	161	161	77	31
-ERCC-00067	3	0	4	4	4	4	2	2	6	9	3	1
-ERCC-00069	5	7	5	3	3	2	1	2	2	1	7	4
-ERCC-00071	41	56	71	37	53	31	15	31	129	105	100	35
-ERCC-00073	0	0	3	0	2	0	0	2	2	2	2	1
-ERCC-00074	13302	15432	24005	12680	15608	13132	4567	6799	47394	40293	46083	13560
-ERCC-00075	0	3	1	2	2	2	0	1	1	1	3	0
-ERCC-00076	100	138	170	137	178	107	36	66	389	324	387	115
-ERCC-00077	5	11	14	3	5	5	1	4	13	9	14	3
-ERCC-00078	11	25	14	14	18	16	5	8	43	35	37	14
-ERCC-00079	25	41	45	33	34	30	14	27	102	86	113	42
-ERCC-00081	0	1	0	1	1	4	1	0	0	1	1	0
-ERCC-00083	0	3	6	3	6	2	0	0	3	1	4	3
-ERCC-00084	8	6	8	9	2	4	3	7	36	19	17	4
-ERCC-00085	3	3	1	1	5	3	0	0	5	8	7	1
-ERCC-00086	3	9	7	6	7	11	0	2	2	1	8	6
-ERCC-00092	123	156	199	105	172	104	48	59	429	315	396	114
-ERCC-00095	115	129	191	121	135	106	41	57	395	346	386	121
-ERCC-00096	8959	11803	15590	9175	11673	8868	3300	5513	30355	25374	31219	9966
-ERCC-00097	1	0	0	0	0	1	1	2	2	1	1	3
-ERCC-00098	11	17	17	15	7	13	2	2	6	14	11	3
-ERCC-00099	10	9	17	4	13	5	5	5	35	25	18	4
-ERCC-00104	0	0	0	1	0	0	0	0	0	0	0	1
-ERCC-00108	511	780	812	551	669	501	202	363	1963	1501	1428	505
-ERCC-00109	3	3	2	2	2	2	1	1	1	2	1	0
-ERCC-00111	297	403	492	296	382	282	121	186	896	869	1029	353
-ERCC-00112	57	68	107	56	68	38	15	35	207	153	179	54
-ERCC-00113	2496	3218	3985	2596	3193	2313	931	1446	8142	6925	8185	2572
-ERCC-00116	117	170	219	94	159	122	42	83	409	300	328	144
-ERCC-00117	1	1	2	1	0	1	0	0	0	1	2	1
-ERCC-00120	0	0	2	1	1	1	0	1	4	1	1	0
-ERCC-00123	2	0	3	2	2	4	0	0	0	0	3	0
-ERCC-00126	2	3	1	3	1	0	0	0	11	10	1	1
-ERCC-00130	12438	16141	20738	12749	15525	12259	4117	7210	43780	37279	43489	13366
-ERCC-00131	53	100	114	66	74	89	20	35	200	157	195	76
-ERCC-00134	0	1	0	1	1	0	0	0	0	1	2	1
-ERCC-00136	825	999	1432	731	943	731	195	375	2530	2392	2346	726
-ERCC-00137	24	10	23	27	15	17	5	11	17	13	20	19
-ERCC-00138	9	10	26	26	11	8	5	3	11	13	18	11
-ERCC-00142	0	0	4	2	3	1	0	0	1	1	3	0
-ERCC-00143	4	6	8	7	5	5	2	0	4	5	8	4
-ERCC-00144	18	36	26	22	18	17	3	14	66	50	53	19
-ERCC-00145	252	378	392	227	289	220	94	147	865	814	602	224
-ERCC-00147	0	0	1	0	0	0	0	0	2	2	1	0
-ERCC-00148	11	15	25	24	24	18	2	7	28	23	39	16
-ERCC-00150	4	8	7	2	5	4	1	2	5	6	10	1
-ERCC-00154	4	8	4	5	4	2	6	3	7	13	10	4
-ERCC-00156	0	1	0	0	0	0	0	0	1	0	0	0
-ERCC-00157	4	3	4	2	7	6	0	0	5	15	12	3
-ERCC-00158	1	2	1	3	4	2	1	1	1	1	3	2
-ERCC-00160	5	8	8	4	3	9	1	4	12	11	18	5
-ERCC-00162	45	58	83	45	49	40	20	17	132	137	144	44
-ERCC-00163	13	10	21	19	22	15	4	7	45	28	41	11
-ERCC-00164	0	0	0	3	2	2	0	0	1	1	2	0
-ERCC-00165	51	38	76	50	60	39	16	19	103	83	128	55
-ERCC-00168	0	0	0	1	0	0	0	0	0	0	0	0
-ERCC-00170	5	6	4	5	7	2	1	2	11	12	10	5
-ERCC-00171	1694	2194	2885	1982	2383	1843	665	1154	5678	4801	6049	2041

prepareRUVSeqInput.pl

-#!/usr/bin/perl
-
-use warnings;
-use strict;
-
-sub parseSupplementary($$);
-sub parseCountsUtrs($$);
-
-MAIN:
-{
-    my $fileSupplementary = shift;
-    my $fileCountsUtrs = shift;
-    my $fileCountsErcc = shift;
-    my %data = ();
-    
-    parseSupplementary($fileSupplementary, \%data);
-    parseCountsUtrs($fileCountsUtrs, \%data);
-    
-    
-}
-
-
-sub parseSupplementary($$)
-{
-    my $fileSupplementary = $_[0];
-    my $data = $_[1];
-    
-    my $lineCounter = 0;
-    open(my $fh, '<', $fileSupplementary) or die $!;
-    while(<$fh>)
-    {
-        chomp($_);
-        next if($lineCounter++ == 0);
-        
-        my @line = split("\t", $_);
-        $data->{"supplementary"}{$line[0]}++;
-        
-    }
-    close($fh);
-    
-    return;
-}
-
-
-sub parseSupplementary($$)
-{
-    my $fileSupplementary = $_[0];
-    my $data = $_[1];
-    
-    my $lineCounter = 0;
-    open(my $fh, '<', $fileSupplementary) or die $!;
-    while(<$fh>)
-    {
-        chomp($_);
-        next if($lineCounter++ == 0);
-        
-        my @line = split("\t", $_);
-        $data->{"supplementary"}{$line[0]}++;
-        
-    }
-    close($fh);
-    
-    return;
-}

tables/countTable_UTRPolysomes_ERCC_21Nov2017.txt

+ERCC	InputHc2	InputHc3	80SHc2	80SHc3	2and3Hc2	2and3Hc3	4and5Hc2	4and5Hc3	6and7Hc2	6and7Hc3	bigger7Hc2	bigger7Hc3
+ERCC-00002	31329	26857	3575	6079	9140	12382	15199	9748	11895	9531	26377	9934
+ERCC-00003	1438	1280	106	152	382	456	632	280	374	300	957	233
+ERCC-00004	13739	11403	1274	1961	3920	4865	6757	3681	4579	3910	11893	3558
+ERCC-00009	1193	992	143	220	346	439	551	392	464	401	1055	374
+ERCC-00012	5	9	3	1	7	16	21	24	24	7	17	8
+ERCC-00013	2	5	0	2	6	2	3	4	5	2	4	3
+ERCC-00014	2	4	0	1	1	0	1	1	2	2	0	4
+ERCC-00016	1	2	0	0	0	2	0	2	3	0	0	0
+ERCC-00017	5	2	1	4	9	9	7	19	8	6	6	3
+ERCC-00019	73	51	10	14	27	29	43	23	43	43	48	28
+ERCC-00022	345	284	35	70	114	148	170	111	127	100	372	150
+ERCC-00024	4	5	2	4	6	4	4	1	2	4	9	1
+ERCC-00025	83	77	11	20	28	40	44	37	35	20	109	31
+ERCC-00028	8	7	2	4	4	7	3	6	6	0	6	3
+ERCC-00031	3	1	0	0	0	0	0	1	0	0	2	0
+ERCC-00033	5	2	2	0	1	1	0	1	0	0	4	0
+ERCC-00034	37	19	13	14	21	22	22	16	15	12	19	3
+ERCC-00035	134	102	8	23	39	51	63	39	54	51	119	41
+ERCC-00039	4	6	0	1	4	2	3	1	0	0	4	3
+ERCC-00040	1	2	0	0	3	5	3	1	5	3	4	4
+ERCC-00042	880	806	94	137	256	349	443	261	314	242	881	280
+ERCC-00043	767	632	36	74	193	238	305	118	141	105	335	86
+ERCC-00044	178	152	21	27	57	72	88	48	65	60	166	44
+ERCC-00046	9161	7814	772	1024	2446	2708	4260	1997	2564	2193	7827	1669
+ERCC-00048	4	0	1	2	3	4	4	1	10	10	13	1
+ERCC-00051	77	51	5	6	17	17	34	11	18	18	63	18
+ERCC-00053	55	57	2	5	13	12	33	13	9	9	28	10
+ERCC-00054	31	31	1	10	10	16	16	18	12	14	47	22
+ERCC-00058	8	4	1	0	2	4	2	3	3	4	3	3
+ERCC-00059	31	25	3	6	3	10	20	7	7	3	34	14
+ERCC-00060	677	534	63	80	167	238	328	163	181	152	560	134
+ERCC-00062	161	161	11	11	43	55	81	41	53	29	77	31
+ERCC-00067	6	9	2	2	3	0	4	4	4	4	3	1
+ERCC-00069	2	1	1	2	5	7	5	3	3	2	7	4
+ERCC-00071	129	105	15	31	41	56	71	37	53	31	100	35
+ERCC-00073	2	2	0	2	0	0	3	0	2	0	2	1
+ERCC-00074	47394	40293	4567	6799	13302	15432	24005	12680	15608	13132	46083	13560
+ERCC-00075	1	1	0	1	0	3	1	2	2	2	3	0
+ERCC-00076	389	324	36	66	100	138	170	137	178	107	387	115
+ERCC-00077	13	9	1	4	5	11	14	3	5	5	14	3
+ERCC-00078	43	35	5	8	11	25	14	14	18	16	37	14
+ERCC-00079	102	86	14	27	25	41	45	33	34	30	113	42
+ERCC-00081	0	1	1	0	0	1	0	1	1	4	1	0
+ERCC-00083	3	1	0	0	0	3	6	3	6	2	4	3
+ERCC-00084	36	19	3	7	8	6	8	9	2	4	17	4
+ERCC-00085	5	8	0	0	3	3	1	1	5	3	7	1
+ERCC-00086	2	1	0	2	3	9	7	6	7	11	8	6
+ERCC-00092	429	315	48	59	123	156	199	105	172	104	396	114
+ERCC-00095	395	346	41	57	115	129	191	121	135	106	386	121
+ERCC-00096	30355	25374	3300	5513	8959	11803	15590	9175	11673	8868	31219	9966
+ERCC-00097	2	1	1	2	1	0	0	0	0	1	1	3
+ERCC-00098	6	14	2	2	11	17	17	15	7	13	11	3
+ERCC-00099	35	25	5	5	10	9	17	4	13	5	18	4
+ERCC-00104	0	0	0	0	0	0	0	1	0	0	0	1
+ERCC-00108	1963	1501	202	363	511	780	812	551	669	501	1428	505
+ERCC-00109	1	2	1	1	3	3	2	2	2	2	1	0
+ERCC-00111	896	869	121	186	297	403	492	296	382	282	1029	353
+ERCC-00112	207	153	15	35	57	68	107	56	68	38	179	54
+ERCC-00113	8142	6925	931	1446	2496	3218	3985	2596	3193	2313	8185	2572
+ERCC-00116	409	300	42	83	117	170	219	94	159	122	328	144
+ERCC-00117	0	1	0	0	1	1	2	1	0	1	2	1
+ERCC-00120	4	1	0	1	0	0	2	1	1	1	1	0
+ERCC-00123	0	0	0	0	2	0	3	2	2	4	3	0
+ERCC-00126	11	10	0	0	2	3	1	3	1	0	1	1
+ERCC-00130	43780	37279	4117	7210	12438	16141	20738	12749	15525	12259	43489	13366
+ERCC-00131	200	157	20	35	53	100	114	66	74	89	195	76
+ERCC-00134	0	1	0	0	0	1	0	1	1	0	2	1
+ERCC-00136	2530	2392	195	375	825	999	1432	731	943	731	2346	726
+ERCC-00137	17	13	5	11	24	10	23	27	15	17	20	19
+ERCC-00138	11	13	5	3	9	10	26	26	11	8	18	11
+ERCC-00142	1	1	0	0	0	0	4	2	3	1	3	0
+ERCC-00143	4	5	2	0	4	6	8	7	5	5	8	4
+ERCC-00144	66	50	3	14	18	36	26	22	18	17	53	19
+ERCC-00145	865	814	94	147	252	378	392	227	289	220	602	224
+ERCC-00147	2	2	0	0	0	0	1	0	0	0	1	0
+ERCC-00148	28	23	2	7	11	15	25	24	24	18	39	16
+ERCC-00150	5	6	1	2	4	8	7	2	5	4	10	1
+ERCC-00154	7	13	6	3	4	8	4	5	4	2	10	4
+ERCC-00156	1	0	0	0	0	1	0	0	0	0	0	0
+ERCC-00157	5	15	0	0	4	3	4	2	7	6	12	3
+ERCC-00158	1	1	1	1	1	2	1	3	4	2	3	2
+ERCC-00160	12	11	1	4	5	8	8	4	3	9	18	5
+ERCC-00162	132	137	20	17	45	58	83	45	49	40	144	44
+ERCC-00163	45	28	4	7	13	10	21	19	22	15	41	11
+ERCC-00164	1	1	0	0	0	0	0	3	2	2	2	0
+ERCC-00165	103	83	16	19	51	38	76	50	60	39	128	55
+ERCC-00168	0	0	0	0	0	0	0	1	0	0	0	0
+ERCC-00170	11	12	1	2	5	6	4	5	7	2	10	5
+ERCC-00171	5678	4801	665	1154	1694	2194	2885	1982	2383	1843	6049	2041