| b662ce6 | Emre Guney | 02 April 2022, 19:37:14 UTC | generator pickling fix for newer versions of networkx | 02 April 2022, 19:37:14 UTC |
| 482b232 | Emre Guney | 30 March 2022, 04:22:30 UTC | slight modification on calculate_proximity to add support for additional distance measures | 30 March 2022, 04:22:30 UTC |
| 3d70722 | Emre Guney | 14 February 2019, 15:01:22 UTC | strip \r in addition to \n | 14 February 2019, 15:01:22 UTC |
| 454977e | Emre Guney | 14 February 2019, 13:18:38 UTC | fixes throughout time and space | 14 February 2019, 13:18:38 UTC |
| dd89ea4 | Emre Guney | 31 July 2018, 17:03:14 UTC | several additions for transqst | 31 July 2018, 17:03:14 UTC |
| 4978aba | Emre Guney | 16 July 2018, 10:01:43 UTC | transqst related changes | 16 July 2018, 10:01:43 UTC |
| c0339b9 | Emre Guney | 25 May 2018, 13:53:48 UTC | nodes_iter changes for networkx 2.0 | 25 May 2018, 13:53:48 UTC |
| 5b1d586 | Emre Guney | 25 May 2018, 13:51:32 UTC | edges_iter changes for networkx 2.0 | 25 May 2018, 13:51:32 UTC |
| 3d193af | Emre Guney | 25 May 2018, 13:34:30 UTC | changes for networkx 2.0 and fixes to stat utils | 25 May 2018, 13:34:30 UTC |
| 56354d7 | Emre Guney | 18 April 2018, 11:00:13 UTC | updated get proximity values function | 18 April 2018, 11:00:13 UTC |
| a087491 | Emre Guney | 04 April 2018, 17:34:35 UTC | minor fix | 04 April 2018, 17:34:35 UTC |
| b00b908 | Emre Guney | 04 April 2018, 09:02:34 UTC | cluster utilities individual pass | 04 April 2018, 09:02:34 UTC |
| 4f77e53 | Emre Guney | 20 March 2018, 09:26:40 UTC | proximity not in network bug | 20 March 2018, 09:26:40 UTC |
| 10458c3 | Emre Guney | 19 March 2018, 17:37:17 UTC | while indetation fix | 19 March 2018, 17:37:17 UTC |
| 6f1ef9f | Emre Guney | 19 March 2018, 17:22:42 UTC | index i fix | 19 March 2018, 17:22:42 UTC |
| 764ca78 | Emre Guney | 19 March 2018, 11:19:04 UTC | changes for grouped cluster runs | 19 March 2018, 11:19:04 UTC |
| c0c0ed1 | Emre Guney | 18 March 2018, 14:52:15 UTC | minor node exclusion fix | 18 March 2018, 14:52:15 UTC |
| a853eae | Emre Guney | 18 March 2018, 14:37:41 UTC | moved proximity cluster running support to toolbox | 18 March 2018, 14:37:41 UTC |
| badce7b | Emre Guney | 16 March 2018, 15:05:58 UTC | added calculate proximity for command line support of proximity | 16 March 2018, 15:05:58 UTC |
| 4cd7991 | Emre Guney | 16 March 2018, 11:39:07 UTC | import bug fix | 16 March 2018, 11:39:07 UTC |
| cd338eb | Emre Guney | 16 March 2018, 11:32:38 UTC | stat related changes for targeting comorbid diseases | 16 March 2018, 11:32:38 UTC |
| 58fbf33 | Emre Guney | 13 February 2018, 15:57:53 UTC | changes for steiner and heuristic tree runs | 13 February 2018, 15:57:53 UTC |
| 048c6b8 | Emre Guney | 12 February 2018, 10:23:38 UTC | moved drug related utilities to toolbox | 12 February 2018, 10:23:38 UTC |
| 5609242 | Emre Guney | 11 February 2018, 21:32:55 UTC | updated README | 11 February 2018, 21:32:55 UTC |
| f518297 | Emre Guney | 11 February 2018, 21:31:27 UTC | updated README | 11 February 2018, 21:31:27 UTC |
| e6e03cb | Emre Guney | 11 February 2018, 21:18:58 UTC | added a simple mycheminfo client for retrieving drug targets | 11 February 2018, 21:18:58 UTC |
| 73baee2 | Emre Guney | 10 February 2018, 19:36:06 UTC | added sql utilities & chembl parser | 10 February 2018, 19:36:06 UTC |
| 10e185a | Emre Guney | 09 February 2018, 16:09:52 UTC | added chembl target retrieval and drugbank mapping as well as wrapper for column separated files | 09 February 2018, 16:09:52 UTC |
| e4bda1a | Emre Guney | 19 January 2018, 15:22:45 UTC | bug fixes on localization parsers | 19 January 2018, 15:22:45 UTC |
| f913a31 | Emre Guney | 19 January 2018, 00:08:02 UTC | added several parsers | 19 January 2018, 00:08:02 UTC |
| 32ac7e2 | Emre Guney | 31 October 2017, 18:52:01 UTC | added visual utilities for drawing basic plots based on matplotlib | 31 October 2017, 18:52:01 UTC |
| f27db42 | Emre Guney | 19 October 2017, 17:34:46 UTC | added several parsers | 19 October 2017, 17:34:46 UTC |
| fa19e0e | Emre Guney | 20 September 2017, 17:35:51 UTC | updated medi parsing and added hetionet parsing | 20 September 2017, 17:35:51 UTC |
| 5b9a5fc | Emre Guney | 01 August 2017, 20:48:17 UTC | started updating medi and hetionet parsers | 01 August 2017, 20:48:17 UTC |
| 1194545 | Emre Guney | 31 July 2017, 13:33:15 UTC | random node picking distinct node selection | 31 July 2017, 13:33:15 UTC |
| 022c319 | Emre Guney | 20 July 2017, 09:21:51 UTC | added separation code to wrappers | 20 July 2017, 09:21:51 UTC |
| f1ec3f8 | Emre Guney | 18 July 2017, 10:25:14 UTC | bug fix in modified separation calculation | 18 July 2017, 10:25:14 UTC |
| 2746d5f | Emre Guney | 18 July 2017, 09:52:48 UTC | multiple guild runs addition | 18 July 2017, 09:52:48 UTC |
| c097f15 | Emre Guney | 14 July 2017, 14:30:56 UTC | subsampling and separation related modifications | 14 July 2017, 14:30:56 UTC |
| 04a9916 | Emre Guney | 23 May 2017, 17:54:40 UTC | added disgenet file parsing | 23 May 2017, 17:54:40 UTC |
| e3c8818 | Emre Guney | 25 April 2017, 18:16:08 UTC | nrf2 analysis related additions | 25 April 2017, 18:16:08 UTC |
| 79c16cf | Emre Guney | 11 April 2017, 15:47:30 UTC | obo parser namepace bug fix, comorbidity parsing | 11 April 2017, 15:47:30 UTC |
| f05e092 | Emre Guney | 10 April 2017, 17:51:53 UTC | symptoms parsing | 10 April 2017, 17:51:53 UTC |
| fdb6dd9 | Emre Guney | 08 April 2017, 11:50:28 UTC | symptoms/comorbidity parsing related changes | 08 April 2017, 11:50:28 UTC |
| cd8919c | emre | 05 April 2017, 00:03:41 UTC | precalculated sp lengths fix | 05 April 2017, 00:03:41 UTC |
| 64c01a4 | emre | 04 April 2017, 22:55:36 UTC | added pre-defined shortest path dictionary support for proximity | 04 April 2017, 22:55:36 UTC |
| 58b0eda | emre | 10 March 2017, 23:12:43 UTC | added shortest path dict creation using given node subset | 10 March 2017, 23:12:43 UTC |
| 5f74975 | Emre Guney | 10 March 2017, 16:23:03 UTC | added orangebook parser | 10 March 2017, 16:23:03 UTC |
| f2c1013 | emre | 08 March 2017, 09:29:31 UTC | changed LCC significance calculation to non-degree matching | 08 March 2017, 09:29:31 UTC |
| 8112c97 | Emre Guney | 07 March 2017, 18:23:35 UTC | added medic parsing (using obo) | 07 March 2017, 18:23:35 UTC |
| 3d5113b | emre | 14 February 2017, 08:55:10 UTC | added lcc filtering to disease gene file reading | 14 February 2017, 08:55:10 UTC |
| 11d7eb8 | emre | 05 January 2017, 08:49:37 UTC | connected component network_utilities fix | 05 January 2017, 08:49:37 UTC |
| 5343234 | emre | 05 January 2017, 08:38:47 UTC | added lcc significance calculation | 05 January 2017, 08:38:47 UTC |
| fc06051 | emre | 25 December 2016, 23:50:19 UTC | merged conflicting wrappers.py | 25 December 2016, 23:50:19 UTC |
| 71a09ec | emre | 25 December 2016, 23:46:09 UTC | added predefined bins for proximity | 25 December 2016, 23:46:09 UTC |
| 61d8a04 | Emre Guney | 29 November 2016, 12:03:50 UTC | additions for GUILD scoring | 29 November 2016, 12:03:50 UTC |
| 3294c09 | Emre Guney | 07 November 2016, 18:52:32 UTC | fixes to ks code | 07 November 2016, 18:52:32 UTC |
| e508b35 | Emre Guney | 27 October 2016, 16:16:06 UTC | uniprot symbol mapping and proximity binning only once | 27 October 2016, 16:16:06 UTC |
| bb4696c | Emre Guney | 19 October 2016, 09:31:58 UTC | added proximity calculation considerations | 19 October 2016, 09:31:58 UTC |
| d6958c6 | Emre Guney | 19 September 2016, 20:50:19 UTC | func assoc related modifications | 19 September 2016, 20:50:19 UTC |
| b42e0fe | Emre Guney | 03 August 2016, 13:00:01 UTC | functional enrichment support and association parameter addition | 03 August 2016, 13:00:01 UTC |
| 2b1834d | Emre Guney | 30 July 2016, 13:46:15 UTC | several additions | 30 July 2016, 13:46:15 UTC |
| 7ce835f | Emre Guney | 19 May 2016, 17:32:03 UTC | several parser modifications | 19 May 2016, 17:32:03 UTC |
| be3ce94 | Emre Guney | 29 April 2016, 18:43:24 UTC | added GUILD interface to wrappers | 29 April 2016, 18:43:24 UTC |
| 90e9971 | Emre Guney | 28 April 2016, 12:56:38 UTC | corrected bug introduced for functional enrichment | 28 April 2016, 12:56:38 UTC |
| cb077b8 | Emre Guney | 15 April 2016, 14:02:00 UTC | Minor markup modifications | 15 April 2016, 14:02:00 UTC |
| 96c7da1 | Emre Guney | 15 April 2016, 13:57:17 UTC | Updated README and wrappers | 15 April 2016, 13:57:17 UTC |
| 41d02d8 | Emre Guney | 15 April 2016, 09:12:37 UTC | modified example for using LCC only | 15 April 2016, 09:12:37 UTC |
| db589aa | Emre Guney | 13 April 2016, 17:00:52 UTC | fixed line breaks | 13 April 2016, 17:00:52 UTC |
| e07a625 | Emre Guney | 13 April 2016, 16:51:01 UTC | refactored proximity related functions for easier access | 13 April 2016, 16:51:01 UTC |
| 82af40d | Emre Guney | 07 April 2016, 07:52:11 UTC | updates & fixes for dz and proxide projects | 07 April 2016, 07:52:11 UTC |
| 16320fa | Emre Guney | 17 February 2016, 18:34:38 UTC | updates for side effect module detection | 17 February 2016, 18:34:38 UTC |
| 3ecb6b3 | Emre Guney | 10 February 2016, 18:13:53 UTC | stitch parsing | 10 February 2016, 18:13:53 UTC |
| 6168e03 | Emre Guney | 08 February 2016, 17:34:40 UTC | added drugbank target uniprot geneid mapping and sider v4 parsing | 08 February 2016, 17:34:40 UTC |
| 109e4fe | Emre Guney | 04 February 2016, 17:46:47 UTC | added all target types parsing and corrected actions problem | 04 February 2016, 17:46:47 UTC |
| bdc3708 | Emre Guney | 04 February 2016, 15:01:04 UTC | drugbank v4.3 parser sanity checks | 04 February 2016, 15:01:04 UTC |
| 77766db | Emre Guney | 03 February 2016, 17:34:07 UTC | drugbank v4.3 parser, need to check correctedness | 03 February 2016, 17:34:07 UTC |
| 04a0627 | Emre Guney | 03 February 2016, 11:16:51 UTC | Merge branch 'master' of /home/eguney/Dropbox/git/toolbox | 03 February 2016, 11:16:51 UTC |
| 17752b8 | Emre Guney | 03 February 2016, 11:16:43 UTC | added external func associate client for GO analysis | 03 February 2016, 11:16:43 UTC |
| 3329f21 | emre | 02 February 2016, 23:35:25 UTC | drugrepurposing parser validated, drugbank v4.3 parser in progress | 02 February 2016, 23:35:25 UTC |
| e218764 | emre | 28 January 2016, 23:18:17 UTC | drugrepurposing resource parser | 28 January 2016, 23:18:17 UTC |
| 4fd886f | emre | 25 January 2016, 00:07:31 UTC | added parser drug repurposing info (incomplete) | 25 January 2016, 00:07:31 UTC |
| 0d9f931 | Emre Guney | 13 January 2016, 15:33:35 UTC | wrapper minor bug fixes | 13 January 2016, 15:33:35 UTC |
| a3a2ef5 | Emre Guney | 02 December 2015, 17:54:52 UTC | added functions wrapping various utilities used in common tasks (network, pathway, overlap, etc.) | 02 December 2015, 17:54:52 UTC |
| a23a80c | Emre Guney | 30 November 2015, 18:28:17 UTC | Merge branch 'master' of https://github.com/emreg00/toolbox | 30 November 2015, 18:28:17 UTC |
| 46999f3 | Emre Guney | 26 November 2015, 18:07:34 UTC | Update README.md | 26 November 2015, 18:07:34 UTC |
| 9eefa6a | Emre Guney | 26 November 2015, 18:06:43 UTC | Update README.md | 26 November 2015, 18:06:43 UTC |
| 55fec82 | Emre Guney | 26 November 2015, 18:05:40 UTC | Update README.md Added Jupyter Notebook to replicate the analysis in the paper. | 26 November 2015, 18:05:40 UTC |
| 4c4bdf2 | Emre Guney | 24 November 2015, 21:44:41 UTC | random seed adjustment for node picking, networkx component function update | 24 November 2015, 21:44:41 UTC |
| 147eff3 | Emre Guney | 24 November 2015, 10:22:37 UTC | Update README.md | 24 November 2015, 10:22:37 UTC |
| 2b26d3b | Emre Guney | 24 November 2015, 10:18:51 UTC | Create README.md Initial commit of README file with a brief overall description. | 24 November 2015, 10:18:51 UTC |
| e352005 | emre | 24 September 2015, 22:50:46 UTC | stitch get drugbank id | 24 September 2015, 22:50:46 UTC |
| 0f6880a | emre | 04 September 2015, 19:31:45 UTC | small change in separation plotting | 04 September 2015, 19:31:45 UTC |
| 2937786 | emre | 15 August 2015, 03:19:48 UTC | added orphanet parser | 15 August 2015, 03:19:48 UTC |
| b2b5c8d | emre | 29 July 2015, 23:45:06 UTC | correction for dailymed parsing of indications with a href | 29 July 2015, 23:45:06 UTC |
| e8dfb7a | emre | 25 July 2015, 02:36:25 UTC | dailymed spl parsing correction for a href | 25 July 2015, 02:36:25 UTC |
| f64b1d3 | emre | 16 July 2015, 02:46:42 UTC | modifications for revision runs | 16 July 2015, 02:46:42 UTC |
| 4f61629 | emre | 30 June 2015, 00:42:41 UTC | added dailymed, labeledin and medi parsing | 30 June 2015, 00:42:41 UTC |
| f82e8f5 | emre | 28 May 2015, 01:01:16 UTC | various updates during PEPPER and INDICATE projects | 28 May 2015, 01:01:16 UTC |
| 26ab3eb | emre | 07 March 2015, 02:09:35 UTC | steiner tree addition (through external package GeneRev) | 07 March 2015, 02:09:35 UTC |
