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