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b8d0bc416a
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added plotting_globals and text file with info on how to run plotting scripst
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2021-06-04 17:26:01 +01:00 |
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d21605b31f
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tweaking baic bp to make generic
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2021-06-04 17:23:41 +01:00 |
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4f60e93abb
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minor updates to dir.R
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2021-06-04 15:05:52 +01:00 |
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7242b3516b
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adpated combining_dfs.py and plotting.R for gid and attempting to make it generic
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2021-06-04 14:36:16 +01:00 |
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d52534f676
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test branch commit
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2021-06-04 09:43:48 +01:00 |
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18af246c24
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saving before starting work
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2021-06-04 09:38:17 +01:00 |
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8009c3fe3d
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updated counts.py with wt seq counts
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2021-03-03 11:54:48 +00:00 |
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c59e3f178d
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added adjusted p-values for DM muts comparison
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2021-02-27 10:42:04 +00:00 |
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bbec97b00c
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updated count.py with indel and stop codon count
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2021-02-24 09:56:36 +00:00 |
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9062751790
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retrieved results for gid b8 and b9
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2021-02-23 08:59:01 +00:00 |
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77efd0b76d
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retrieved gid b7 and submitted b8,b9 and b10
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2021-02-22 09:31:29 +00:00 |
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88dad2696f
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retrieved results for gid b6
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2021-02-21 16:23:22 +00:00 |
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34c0b808ea
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added count.py to count samples for quick checks
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2021-02-21 16:07:33 +00:00 |
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05562399ce
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saving work and generating revised_figure7
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2021-02-20 16:17:38 +00:00 |
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9f03e6a6fd
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dynamut retrieved b5 and b6, submitted 6 and 7
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2021-02-20 13:05:30 +00:00 |
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2995299179
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code to retrieve results from batch 4 and 5 once ready
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2021-02-19 12:09:26 +00:00 |
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f9249d7bf2
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updated .gitignore
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2021-02-18 12:01:04 +00:00 |
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d683e971d4
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updated .gitignore to include temp dirs
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2021-02-18 11:54:36 +00:00 |
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8dc3a790c0
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add files
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2021-02-18 11:50:46 +00:00 |
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69b62e54a5
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running dynamut in batches
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2021-02-18 11:27:20 +00:00 |
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cfdd18086a
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renamed files in dynamut for consistency
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2021-02-18 10:52:51 +00:00 |
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9a0e98eb24
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renamed file in mcsm_na to be consistent
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2021-02-18 10:51:17 +00:00 |
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2168007f12
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renaming file
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2021-02-18 10:48:06 +00:00 |
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19d89230f5
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renamed file run_submit to run_submit_dynamut
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2021-02-18 10:45:35 +00:00 |
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a9a4483aee
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renamed file run_results to run_get_results
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2021-02-18 10:43:45 +00:00 |
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cd06a83e13
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ran mcsm_na for all 26 batches for gid
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2021-02-16 13:55:31 +00:00 |
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013bba2503
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sunmitting mcsm_na jobs manually
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2021-02-16 10:51:06 +00:00 |
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b69d9d729a
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added get_results_mcsm_na.py run_get_results.py to retrieve results for each batch run of 20 for mcsm_na
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2021-02-15 12:22:52 +00:00 |
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7a74fecbda
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saving work for mcsm_na
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2021-02-15 12:22:19 +00:00 |
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322979406c
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added mcsm_na_temp
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2021-02-12 17:40:02 +00:00 |
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1f72001689
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added shell script to format muts for mcsm NA
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2021-02-12 17:38:42 +00:00 |
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c99f1cac92
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added mcsm_na scripts to submit batches of 20
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2021-02-12 16:51:41 +00:00 |
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b2397ea99d
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minor cody tidy up
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2021-02-12 16:50:34 +00:00 |
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9c221e6786
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tested and added note to reflect that tar.gz needs to be made into a cmd line option
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2021-02-12 15:32:16 +00:00 |
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7f75b92553
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checked tar.gz downlaod from the script with example
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2021-02-12 15:25:32 +00:00 |
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56f5479c0b
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added tar.gz download within get_results.py
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2021-02-12 15:24:51 +00:00 |
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80f7e039ab
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separated defs and calls and added a separate script to test examples
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2021-02-12 14:15:55 +00:00 |
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4e19961283
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updating and cleaning get_results script
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2021-02-12 12:04:49 +00:00 |
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7116b45bf8
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updating get_results_def.py
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2021-02-12 11:38:21 +00:00 |
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28521104f8
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added example files to test dynamut results fetching for single and multiple urls
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2021-02-11 19:22:19 +00:00 |
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1d8e6f0d75
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updated with def for get_results.py for dynamut
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2021-02-11 19:21:26 +00:00 |
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2e047fd548
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extracting single mut url from the batch processing step
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2021-02-11 17:19:04 +00:00 |
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5d6ddb7639
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added submit_def.py with example to run batch of 50
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2021-02-11 14:36:32 +00:00 |
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cfe9028a9c
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added split_csv.sh
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2021-02-11 13:42:14 +00:00 |
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2eab17cb9e
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uncommented some debug output for mcsm, pandas and numpy conflict. So temporarily resolved it by running from base env
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2021-02-11 10:53:23 +00:00 |
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d159a81cfb
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saving work in dynamut submit
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2021-02-11 09:46:11 +00:00 |
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fad1526ce5
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dynamut scripts and minor change dir for rd_df.py
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2021-02-10 15:40:33 +00:00 |
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0fd3e75ab0
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renamed files
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2021-02-10 11:53:20 +00:00 |
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600f829972
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added sample test_snps
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2021-02-10 10:38:08 +00:00 |
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d139342074
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updated minor changes
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2021-02-10 10:37:44 +00:00 |
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