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https://github.com/ctlab/quant3p
25 December 2019, 16:37:49 UTC
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Revision Author Date Message Commit Date
be99779 Alexey Sergushichev 02 December 2019, 17:22:45 UTC fixes for htseq & macs2 upgrades 02 December 2019, 17:22:45 UTC
0aa4fbf Alexey Sergushichev 30 October 2018, 08:55:48 UTC setting tag size for macs to work in stream mode 30 October 2018, 08:55:48 UTC
43b3a2d Alexey Sergushichev 05 July 2016, 08:17:47 UTC nonamecheck for bedtools intersect 05 July 2016, 08:18:40 UTC
c01b885 Alexey Sergushichev 13 June 2016, 17:11:20 UTC fixed typo 13 June 2016, 17:11:20 UTC
e1812b9 Alexey Sergushichev 11 June 2016, 11:02:57 UTC working with a single bam 11 June 2016, 11:02:57 UTC
8520bce Alexey Sergushichev 10 June 2016, 17:59:44 UTC Saving temp bam file due to pybedtools regression 10 June 2016, 19:26:46 UTC
9db7206 Alexey Sergushichev 11 December 2014, 19:34:20 UTC Update README.md 11 December 2014, 19:34:20 UTC
e015f87 Alexey Sergushichev 11 December 2014, 19:32:33 UTC Merge pull request #1 from ctlab/bedtools Using bedtools to fix multimappers 11 December 2014, 19:32:33 UTC
5a1d5f3 Alexey Sergushichev 11 December 2014, 19:31:42 UTC typo 11 December 2014, 19:31:42 UTC
7916c16 Alexey Sergushichev 11 December 2014, 19:26:37 UTC dependency on pybedtools >= 0.6.9 11 December 2014, 19:26:37 UTC
3cd2061 Alexey Sergushichev 11 December 2014, 09:00:30 UTC Using poybedtools instead of HTseq 11 December 2014, 09:00:30 UTC
42a8b75 Alexey Sergushichev 10 December 2014, 19:25:58 UTC No need to remove fixed bam directory now 10 December 2014, 19:25:58 UTC
788b415 Alexey Sergushichev 10 December 2014, 16:13:36 UTC Not explicitly creating files with fixed bams 10 December 2014, 16:13:36 UTC
066168e Alexey Sergushichev 10 December 2014, 15:59:50 UTC Do not explicitly creating combined stranded bams 10 December 2014, 15:59:50 UTC
d52579c Alexey Sergushichev 10 December 2014, 13:34:20 UTC typo 10 December 2014, 13:34:20 UTC
f9e9f04 Alexey Sergushichev 09 December 2014, 18:33:39 UTC Merge branch 'master' of github.com:ctlab/quant3p 09 December 2014, 18:33:39 UTC
c2bbee3 Alexey Sergushichev 09 December 2014, 18:33:05 UTC Removed debug output 09 December 2014, 18:33:05 UTC
ae0222f Alexey Sergushichev 29 November 2014, 10:39:53 UTC Pasted updated output 29 November 2014, 10:39:53 UTC
2d09ed0 Alexey Sergushichev 28 November 2014, 18:00:36 UTC BAM -> GTF in help 28 November 2014, 18:00:36 UTC
81a33f0 Alexey Sergushichev 28 November 2014, 17:56:51 UTC exonic peaks -> intragenic peaks 28 November 2014, 17:56:51 UTC
744f9a8 Alexey Sergushichev 28 November 2014, 17:56:32 UTC Correct field for mapping quality 28 November 2014, 17:56:32 UTC
d8acede Alexey Sergushichev 28 November 2014, 09:34:40 UTC FIxing alignment quality for multimappers 28 November 2014, 09:34:40 UTC
a53dbaf Alexey Sergushichev 27 November 2014, 19:19:03 UTC Fixed losing last exon 27 November 2014, 19:19:03 UTC
2538302 Alexey Sergushichev 27 November 2014, 16:31:46 UTC Moved back to pysam 27 November 2014, 16:31:46 UTC
128c86d Alexey Sergushichev 27 November 2014, 14:24:42 UTC not fixed bam was used for counting 27 November 2014, 14:24:42 UTC
484aab0 Alexey Sergushichev 27 November 2014, 11:12:26 UTC Merge branch 'master' of github.com:ctlab/quant3p 27 November 2014, 11:12:26 UTC
e1e5b4b Alexey Sergushichev 27 November 2014, 11:04:45 UTC Step-by-step guied in README 27 November 2014, 11:04:45 UTC
517c920 Alexey Sergushichev 27 November 2014, 11:01:25 UTC Fixed copying tags in bam-file 27 November 2014, 11:01:25 UTC
640a653 Alexey Sergushichev 27 November 2014, 10:09:19 UTC Local install in README 27 November 2014, 10:09:19 UTC
25ee0e8 Alexey Sergushichev 27 November 2014, 09:44:32 UTC Added script to do the whole analysis in one piece 27 November 2014, 09:44:32 UTC
3761faf Alexey Sergushichev 26 November 2014, 14:11:23 UTC Transformed into a package 26 November 2014, 14:11:23 UTC
c2f3a9d Alexey Sergushichev 26 November 2014, 14:10:22 UTC slices.bed with intervals used for the example 26 November 2014, 14:10:22 UTC
6a8590d Alexey Sergushichev 26 November 2014, 13:35:42 UTC README and example 26 November 2014, 13:35:42 UTC
bcf52bd Alexey Sergushichev 26 November 2014, 13:34:47 UTC Fixed bam writing 26 November 2014, 13:34:47 UTC
8152550 Alexey Sergushichev 26 November 2014, 12:16:39 UTC Ignoreing peaks that overlaps with exons 26 November 2014, 12:16:39 UTC
63987b4 Alexey Sergushichev 26 November 2014, 10:26:50 UTC Initial commit 26 November 2014, 10:26:50 UTC
50f5da3 Alexey Sergushichev 26 November 2014, 10:19:06 UTC Initial commit 26 November 2014, 10:19:06 UTC
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