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https://github.com/qqwang-berkeley/JUM
06 April 2024, 01:50:55 UTC
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029d158 Qingqing Wang 06 February 2019, 23:21:26 UTC Update README.md 06 February 2019, 23:21:26 UTC
9441840 Qingqing Wang 29 August 2018, 17:36:09 UTC Update README.md 29 August 2018, 17:36:09 UTC
505d53e Qingqing Wang 09 August 2018, 17:33:51 UTC Update README.md 09 August 2018, 17:33:51 UTC
6d43aff Qingqing Wang 06 August 2018, 16:52:39 UTC Update README.md 06 August 2018, 16:52:39 UTC
899aad4 Qingqing Wang 31 July 2018, 21:54:22 UTC Update Old JUM manual for 1.3.7-1.3.11 31 July 2018, 21:54:22 UTC
156f996 Qingqing Wang 31 July 2018, 21:50:16 UTC Update README.md 31 July 2018, 21:50:16 UTC
05b9711 Qingqing Wang 31 July 2018, 21:49:55 UTC Update README.md 31 July 2018, 21:49:55 UTC
68d1559 Qingqing Wang 31 July 2018, 21:48:08 UTC Update README.md 31 July 2018, 21:48:08 UTC
985ed14 Qingqing Wang 31 July 2018, 20:37:34 UTC Add files via upload 31 July 2018, 20:37:34 UTC
758dca9 Qingqing Wang 31 July 2018, 18:58:36 UTC Add files via upload 31 July 2018, 18:58:36 UTC
14adeec Qingqing Wang 31 July 2018, 18:56:41 UTC Delete second_processing_generate_JUM_reference_for_profiled_total_alternative_splicing_event_junction.pl 31 July 2018, 18:56:41 UTC
0e1d864 Qingqing Wang 31 July 2018, 18:56:34 UTC Delete screening_intron_retention_event_for_no_inner_junction.pl 31 July 2018, 18:56:34 UTC
37d9c35 Qingqing Wang 31 July 2018, 18:56:27 UTC Delete screening_intron_retention_event_for_deltachange_consistency.pl 31 July 2018, 18:56:27 UTC
4c5219f Qingqing Wang 31 July 2018, 18:56:20 UTC Delete screening_cassette_exon_events.pl 31 July 2018, 18:56:20 UTC
7983dda Qingqing Wang 31 July 2018, 18:56:13 UTC Delete screening_MXE_events.pl 31 July 2018, 18:56:13 UTC
7a0dcaf Qingqing Wang 31 July 2018, 18:56:05 UTC Delete screening_A5SS_A3SS_events.pl 31 July 2018, 18:56:05 UTC
458af5b Qingqing Wang 31 July 2018, 18:55:57 UTC Delete profiling_splicing_patterns_from_AS_events_6.pl 31 July 2018, 18:55:57 UTC
64c4c96 Qingqing Wang 31 July 2018, 18:55:49 UTC Delete profiling_splicing_patterns_from_AS_events_5.pl 31 July 2018, 18:55:49 UTC
81471d3 Qingqing Wang 31 July 2018, 18:55:42 UTC Delete profiling_splicing_patterns_from_AS_events_4.pl 31 July 2018, 18:55:42 UTC
637653d Qingqing Wang 31 July 2018, 18:55:33 UTC Delete profiling_splicing_patterns_from_AS_events_3_updated.pl 31 July 2018, 18:55:33 UTC
acd8bc2 Qingqing Wang 31 July 2018, 18:55:24 UTC Delete profiling_splicing_patterns_from_AS_events_2.pl 31 July 2018, 18:55:24 UTC
b2420f6 Qingqing Wang 31 July 2018, 18:55:16 UTC Delete profiling_splicing_patterns_from_AS_events_1.pl 31 July 2018, 18:55:16 UTC
05e599e Qingqing Wang 31 July 2018, 18:55:09 UTC Delete profiling_splicing_patterns_from_AS_events.pl 31 July 2018, 18:55:09 UTC
e5457bb Qingqing Wang 31 July 2018, 18:55:00 UTC Delete profile_overhang_from_STAR_output_step_2.pl 31 July 2018, 18:55:00 UTC
09a5ece Qingqing Wang 31 July 2018, 18:54:54 UTC Delete profile_overhang_from_STAR_output_step_1.pl 31 July 2018, 18:54:54 UTC
a7ac452 Qingqing Wang 31 July 2018, 18:54:46 UTC Delete profile_AS_events_sharing_5_prime_ss.pl 31 July 2018, 18:54:46 UTC
53ac7a0 Qingqing Wang 31 July 2018, 18:54:38 UTC Delete profile_AS_events_sharing_3_prime_ss.pl 31 July 2018, 18:54:38 UTC
aa905c9 Qingqing Wang 31 July 2018, 18:54:30 UTC Delete process_raw_AS_differential_output.pl 31 July 2018, 18:54:30 UTC
448d8a4 Qingqing Wang 31 July 2018, 18:54:22 UTC Delete preparing_intron_retention_event_for_JUM_combine.pl 31 July 2018, 18:54:22 UTC
841b51a Qingqing Wang 31 July 2018, 18:54:14 UTC Delete preparing_intron_retention_count_table_short_intron.pl 31 July 2018, 18:54:14 UTC
89a4395 Qingqing Wang 31 July 2018, 18:54:08 UTC Delete preparing_intron_retention_count_table_long_intron.pl 31 July 2018, 18:54:08 UTC
eb1d166 Qingqing Wang 31 July 2018, 18:54:01 UTC Delete prepare_significant_long_intron_retention_event.pl 31 July 2018, 18:54:01 UTC
f906127 Qingqing Wang 31 July 2018, 18:53:53 UTC Delete prepare_count_file_after_STAR_2_pass_mapping.pl 31 July 2018, 18:53:53 UTC
c9e1bb7 Qingqing Wang 31 July 2018, 18:53:42 UTC Delete output_reformat_JUM_4.pl 31 July 2018, 18:53:42 UTC
7daa760 Qingqing Wang 31 July 2018, 18:53:34 UTC Delete output_reformat_JUM_3.pl 31 July 2018, 18:53:34 UTC
e4f49d0 Qingqing Wang 31 July 2018, 18:53:27 UTC Delete output_reformat_JUM_2.pl 31 July 2018, 18:53:27 UTC
3de73b1 Qingqing Wang 31 July 2018, 18:53:19 UTC Delete output_reformat_JUM_1.pl 31 July 2018, 18:53:19 UTC
ff8a565 Qingqing Wang 31 July 2018, 18:53:10 UTC Delete making_junction_count_file_matching_annotation_for_JUM_in_intron_retention.pl 31 July 2018, 18:53:10 UTC
e274790 Qingqing Wang 31 July 2018, 18:53:03 UTC Delete making_junction_count_file_matching_annotation_for_JUM.pl 31 July 2018, 18:53:03 UTC
0d4c45d Qingqing Wang 31 July 2018, 18:52:55 UTC Delete identify_gene_name_for_JUM_output_3.pl 31 July 2018, 18:52:55 UTC
7c30a79 Qingqing Wang 31 July 2018, 18:52:48 UTC Delete identify_gene_name_for_JUM_output_2.pl 31 July 2018, 18:52:48 UTC
6f6a485 Qingqing Wang 31 July 2018, 18:52:41 UTC Delete identify_gene_name_for_JUM_output_1.pl 31 July 2018, 18:52:41 UTC
cf588c2 Qingqing Wang 31 July 2018, 18:52:33 UTC Delete generate_JUM_format_annotation_file_for_profiled_alternative_splicing_event_junction.pl 31 July 2018, 18:52:33 UTC
ae916c4 Qingqing Wang 31 July 2018, 18:52:25 UTC Delete first_processing_generate_JUM_reference_for_profiled_total_alternative_splicing_event_junction.pl 31 July 2018, 18:52:25 UTC
7789482 Qingqing Wang 31 July 2018, 18:52:16 UTC Delete extract_intron_retention_event_coordinate_from_samples_conditional_union.pl 31 July 2018, 18:52:16 UTC
5c562c8 Qingqing Wang 31 July 2018, 18:52:08 UTC Delete extract_intron_retention_event_coordinate_conditional_union_splicing_junction_gff.pl 31 July 2018, 18:52:08 UTC
5dcb998 Qingqing Wang 31 July 2018, 18:52:00 UTC Delete experiment_design.txt 31 July 2018, 18:52:00 UTC
76d0f1c Qingqing Wang 31 July 2018, 18:51:50 UTC Delete determining_rightful_total_cassette_exon_event.pl 31 July 2018, 18:51:50 UTC
3f8873e Qingqing Wang 31 July 2018, 18:51:43 UTC Delete determining_rightful_long_intron_retention_event.pl 31 July 2018, 18:51:43 UTC
549c6be Qingqing Wang 31 July 2018, 18:51:33 UTC Delete count_reads_for_intron_retention_sam.pl 31 July 2018, 18:51:33 UTC
c7ca0d1 Qingqing Wang 31 July 2018, 18:51:25 UTC Delete count_intron_read_long_intron_retention_step3.pl 31 July 2018, 18:51:25 UTC
00da994 Qingqing Wang 31 July 2018, 18:51:18 UTC Delete count_intron_read_long_intron_retention_step2.pl 31 July 2018, 18:51:18 UTC
42c92dc Qingqing Wang 31 July 2018, 18:51:10 UTC Delete count_intron_read_long_intron_retention_step1.pl 31 July 2018, 18:51:10 UTC
f324919 Qingqing Wang 31 July 2018, 18:51:02 UTC Delete R_script_JUM.R 31 July 2018, 18:51:02 UTC
a46156c Qingqing Wang 31 July 2018, 18:50:53 UTC Delete Identify_junctions_exist_in_certain_number_of_input_files.pl 31 July 2018, 18:50:53 UTC
1dea8c7 Qingqing Wang 31 July 2018, 18:50:45 UTC Delete Identify_junctions_exist_in_all_samples.pl 31 July 2018, 18:50:45 UTC
6bdecc4 Qingqing Wang 31 July 2018, 18:50:27 UTC Delete Identify_intron_retention_event_exist_in_all_samples.pl 31 July 2018, 18:50:27 UTC
3816265 Qingqing Wang 31 July 2018, 18:50:08 UTC Delete JUM_4.sh 31 July 2018, 18:50:08 UTC
5b2c5f7 Qingqing Wang 31 July 2018, 18:49:59 UTC Delete JUM_3.sh 31 July 2018, 18:49:59 UTC
b6c5406 Qingqing Wang 31 July 2018, 18:49:47 UTC Delete JUM_2-3.sh 31 July 2018, 18:49:47 UTC
19e3f11 Qingqing Wang 31 July 2018, 18:49:35 UTC Delete JUM_2-2.sh 31 July 2018, 18:49:35 UTC
621dc7e Qingqing Wang 31 July 2018, 18:49:12 UTC Delete JUM_2-1.sh 31 July 2018, 18:49:12 UTC
5f9e7bf Qingqing Wang 26 July 2018, 02:14:08 UTC Update README.md 26 July 2018, 02:14:08 UTC
1ac452b Qingqing Wang 26 July 2018, 02:13:38 UTC Update README.md 26 July 2018, 02:13:38 UTC
454d5c8 Qingqing Wang 14 July 2018, 06:34:45 UTC Update README.md 14 July 2018, 06:34:45 UTC
86b7ace Qingqing Wang 14 July 2018, 06:11:41 UTC Update README.md 14 July 2018, 06:11:41 UTC
4206798 Qingqing Wang 14 July 2018, 06:04:41 UTC Add files via upload 14 July 2018, 06:04:41 UTC
e5ad12e Qingqing Wang 14 July 2018, 06:03:06 UTC Delete JUM_4.sh 14 July 2018, 06:03:06 UTC
c75cae1 Qingqing Wang 14 July 2018, 06:02:58 UTC Delete JUM_3.sh 14 July 2018, 06:02:58 UTC
19afc6d Qingqing Wang 14 July 2018, 06:02:49 UTC Delete JUM_2-3.sh 14 July 2018, 06:02:49 UTC
bc70692 Qingqing Wang 14 July 2018, 06:02:29 UTC Delete JUM_2-2.sh 14 July 2018, 06:02:29 UTC
93cd45e Qingqing Wang 14 July 2018, 06:02:19 UTC Delete JUM_2-1.sh 14 July 2018, 06:02:19 UTC
19e9080 Qingqing Wang 14 July 2018, 05:50:04 UTC Update README.md 14 July 2018, 05:50:04 UTC
fbd30ec Qingqing Wang 14 July 2018, 05:49:27 UTC Update README.md 14 July 2018, 05:49:27 UTC
59ed579 Qingqing Wang 14 July 2018, 05:48:44 UTC Update README.md 14 July 2018, 05:48:44 UTC
f551d63 Qingqing Wang 12 June 2018, 17:41:17 UTC Update README.md 12 June 2018, 17:41:17 UTC
b340065 Qingqing Wang 31 May 2018, 17:04:15 UTC Update README.md 31 May 2018, 17:04:15 UTC
c5ef9ec Qingqing Wang 21 May 2018, 23:03:33 UTC Merge pull request #13 from qqwang-berkeley/add-license-1 CREATE LICENSE 21 May 2018, 23:03:33 UTC
00fdb3e Qingqing Wang 21 May 2018, 23:03:13 UTC CREATE LICENSE 21 May 2018, 23:03:13 UTC
75079f2 Qingqing Wang 13 April 2018, 16:20:26 UTC Update README.md 13 April 2018, 16:20:26 UTC
3951fd2 Qingqing Wang 13 April 2018, 16:00:34 UTC Update README.md 13 April 2018, 16:00:34 UTC
b1c825e Qingqing Wang 12 April 2018, 21:59:29 UTC Merge pull request #12 from qqwang-berkeley/rearrangefiles Rename determining_rightful_long_intron_retention_event.pl to bin/det… 12 April 2018, 21:59:29 UTC
877088c Qingqing Wang 12 April 2018, 21:57:13 UTC Rename JUM manual for 1.3.7-1.3.11 to Old JUM manual for 1.3.7-1.3.11 12 April 2018, 21:57:13 UTC
fbe93f8 Qingqing Wang 12 April 2018, 21:56:43 UTC Rename second_processing_generate_JUM_reference_for_profiled_total_alternative_splicing_event_junction.pl to bin/second_processing_generate_JUM_reference_for_profiled_total_alternative_splicing_event_junction.pl 12 April 2018, 21:56:43 UTC
16bbcaa Qingqing Wang 12 April 2018, 21:56:28 UTC Rename screening_intron_retention_event_for_no_inner_junction.pl to bin/screening_intron_retention_event_for_no_inner_junction.pl 12 April 2018, 21:56:28 UTC
97a37e6 Qingqing Wang 12 April 2018, 21:55:41 UTC Rename screening_intron_retention_event_for_deltachange_consistency.pl to bin/screening_intron_retention_event_for_deltachange_consistency.pl 12 April 2018, 21:55:41 UTC
29c26bf Qingqing Wang 12 April 2018, 21:55:27 UTC Rename screening_cassette_exon_events.pl to bin/screening_cassette_exon_events.pl 12 April 2018, 21:55:27 UTC
a1b2b57 Qingqing Wang 12 April 2018, 21:55:13 UTC Rename screening_MXE_events.pl to bin/screening_MXE_events.pl 12 April 2018, 21:55:13 UTC
7d9e332 Qingqing Wang 12 April 2018, 21:54:58 UTC Rename screening_A5SS_A3SS_events.pl to bin/screening_A5SS_A3SS_events.pl 12 April 2018, 21:54:58 UTC
04a11b5 Qingqing Wang 12 April 2018, 21:54:45 UTC Rename profiling_splicing_patterns_from_AS_events_6.pl to bin/profiling_splicing_patterns_from_AS_events_6.pl 12 April 2018, 21:54:45 UTC
3812a68 Qingqing Wang 12 April 2018, 21:54:33 UTC Rename profiling_splicing_patterns_from_AS_events_5.pl to bin/profiling_splicing_patterns_from_AS_events_5.pl 12 April 2018, 21:54:33 UTC
8c4ce11 Qingqing Wang 12 April 2018, 21:54:19 UTC Rename profiling_splicing_patterns_from_AS_events_4.pl to bin/profiling_splicing_patterns_from_AS_events_4.pl 12 April 2018, 21:54:19 UTC
6850cdb Qingqing Wang 12 April 2018, 21:54:02 UTC Rename profiling_splicing_patterns_from_AS_events_3_updated.pl to bin/profiling_splicing_patterns_from_AS_events_3_updated.pl 12 April 2018, 21:54:02 UTC
2252847 Qingqing Wang 12 April 2018, 21:53:46 UTC Rename profiling_splicing_patterns_from_AS_events_2.pl to bin/profiling_splicing_patterns_from_AS_events_2.pl 12 April 2018, 21:53:46 UTC
6278f64 Qingqing Wang 12 April 2018, 21:53:28 UTC Rename profiling_splicing_patterns_from_AS_events_1.pl to bin/profiling_splicing_patterns_from_AS_events_1.pl 12 April 2018, 21:53:28 UTC
43dd9b3 Qingqing Wang 12 April 2018, 21:53:13 UTC Rename profiling_splicing_patterns_from_AS_events.pl to bin/profiling_splicing_patterns_from_AS_events.pl 12 April 2018, 21:53:13 UTC
386b156 Qingqing Wang 12 April 2018, 21:52:57 UTC Rename profile_overhang_from_STAR_output_step_2.pl to bin/profile_overhang_from_STAR_output_step_2.pl 12 April 2018, 21:52:57 UTC
1a0e516 Qingqing Wang 12 April 2018, 21:52:42 UTC Rename profile_overhang_from_STAR_output_step_1.pl to bin/profile_overhang_from_STAR_output_step_1.pl 12 April 2018, 21:52:42 UTC
fc6356d Qingqing Wang 12 April 2018, 21:52:28 UTC Rename profile_AS_events_sharing_5_prime_ss.pl to bin/profile_AS_events_sharing_5_prime_ss.pl 12 April 2018, 21:52:28 UTC
c4550a8 Qingqing Wang 12 April 2018, 21:52:12 UTC Rename profile_AS_events_sharing_3_prime_ss.pl to bin/profile_AS_events_sharing_3_prime_ss.pl 12 April 2018, 21:52:12 UTC
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