|
|
7242b3516b
|
adpated combining_dfs.py and plotting.R for gid and attempting to make it generic
|
2021-06-04 14:36:16 +01:00 |
|
|
|
d52534f676
|
test branch commit
|
2021-06-04 09:43:48 +01:00 |
|
|
|
18af246c24
|
saving before starting work
|
2021-06-04 09:38:17 +01:00 |
|
|
|
8009c3fe3d
|
updated counts.py with wt seq counts
|
2021-03-03 11:54:48 +00:00 |
|
|
|
c59e3f178d
|
added adjusted p-values for DM muts comparison
|
2021-02-27 10:42:04 +00:00 |
|
|
|
bbec97b00c
|
updated count.py with indel and stop codon count
|
2021-02-24 09:56:36 +00:00 |
|
|
|
9062751790
|
retrieved results for gid b8 and b9
|
2021-02-23 08:59:01 +00:00 |
|
|
|
77efd0b76d
|
retrieved gid b7 and submitted b8,b9 and b10
|
2021-02-22 09:31:29 +00:00 |
|
|
|
88dad2696f
|
retrieved results for gid b6
|
2021-02-21 16:23:22 +00:00 |
|
|
|
34c0b808ea
|
added count.py to count samples for quick checks
|
2021-02-21 16:07:33 +00:00 |
|
|
|
05562399ce
|
saving work and generating revised_figure7
|
2021-02-20 16:17:38 +00:00 |
|
|
|
9f03e6a6fd
|
dynamut retrieved b5 and b6, submitted 6 and 7
|
2021-02-20 13:05:30 +00:00 |
|
|
|
2995299179
|
code to retrieve results from batch 4 and 5 once ready
|
2021-02-19 12:09:26 +00:00 |
|
|
|
f9249d7bf2
|
updated .gitignore
|
2021-02-18 12:01:04 +00:00 |
|
|
|
d683e971d4
|
updated .gitignore to include temp dirs
|
2021-02-18 11:54:36 +00:00 |
|
|
|
8dc3a790c0
|
add files
|
2021-02-18 11:50:46 +00:00 |
|
|
|
69b62e54a5
|
running dynamut in batches
|
2021-02-18 11:27:20 +00:00 |
|
|
|
cfdd18086a
|
renamed files in dynamut for consistency
|
2021-02-18 10:52:51 +00:00 |
|
|
|
9a0e98eb24
|
renamed file in mcsm_na to be consistent
|
2021-02-18 10:51:17 +00:00 |
|
|
|
2168007f12
|
renaming file
|
2021-02-18 10:48:06 +00:00 |
|
|
|
19d89230f5
|
renamed file run_submit to run_submit_dynamut
|
2021-02-18 10:45:35 +00:00 |
|
|
|
a9a4483aee
|
renamed file run_results to run_get_results
|
2021-02-18 10:43:45 +00:00 |
|
|
|
cd06a83e13
|
ran mcsm_na for all 26 batches for gid
|
2021-02-16 13:55:31 +00:00 |
|
|
|
013bba2503
|
sunmitting mcsm_na jobs manually
|
2021-02-16 10:51:06 +00:00 |
|
|
|
b69d9d729a
|
added get_results_mcsm_na.py run_get_results.py to retrieve results for each batch run of 20 for mcsm_na
|
2021-02-15 12:22:52 +00:00 |
|
|
|
7a74fecbda
|
saving work for mcsm_na
|
2021-02-15 12:22:19 +00:00 |
|
|
|
322979406c
|
added mcsm_na_temp
|
2021-02-12 17:40:02 +00:00 |
|
|
|
1f72001689
|
added shell script to format muts for mcsm NA
|
2021-02-12 17:38:42 +00:00 |
|
|
|
c99f1cac92
|
added mcsm_na scripts to submit batches of 20
|
2021-02-12 16:51:41 +00:00 |
|
|
|
b2397ea99d
|
minor cody tidy up
|
2021-02-12 16:50:34 +00:00 |
|
|
|
9c221e6786
|
tested and added note to reflect that tar.gz needs to be made into a cmd line option
|
2021-02-12 15:32:16 +00:00 |
|
|
|
7f75b92553
|
checked tar.gz downlaod from the script with example
|
2021-02-12 15:25:32 +00:00 |
|
|
|
56f5479c0b
|
added tar.gz download within get_results.py
|
2021-02-12 15:24:51 +00:00 |
|
|
|
80f7e039ab
|
separated defs and calls and added a separate script to test examples
|
2021-02-12 14:15:55 +00:00 |
|
|
|
4e19961283
|
updating and cleaning get_results script
|
2021-02-12 12:04:49 +00:00 |
|
|
|
7116b45bf8
|
updating get_results_def.py
|
2021-02-12 11:38:21 +00:00 |
|
|
|
28521104f8
|
added example files to test dynamut results fetching for single and multiple urls
|
2021-02-11 19:22:19 +00:00 |
|
|
|
1d8e6f0d75
|
updated with def for get_results.py for dynamut
|
2021-02-11 19:21:26 +00:00 |
|
|
|
2e047fd548
|
extracting single mut url from the batch processing step
|
2021-02-11 17:19:04 +00:00 |
|
|
|
5d6ddb7639
|
added submit_def.py with example to run batch of 50
|
2021-02-11 14:36:32 +00:00 |
|
|
|
cfe9028a9c
|
added split_csv.sh
|
2021-02-11 13:42:14 +00:00 |
|
|
|
2eab17cb9e
|
uncommented some debug output for mcsm, pandas and numpy conflict. So temporarily resolved it by running from base env
|
2021-02-11 10:53:23 +00:00 |
|
|
|
d159a81cfb
|
saving work in dynamut submit
|
2021-02-11 09:46:11 +00:00 |
|
|
|
fad1526ce5
|
dynamut scripts and minor change dir for rd_df.py
|
2021-02-10 15:40:33 +00:00 |
|
|
|
0fd3e75ab0
|
renamed files
|
2021-02-10 11:53:20 +00:00 |
|
|
|
600f829972
|
added sample test_snps
|
2021-02-10 10:38:08 +00:00 |
|
|
|
d139342074
|
updated minor changes
|
2021-02-10 10:37:44 +00:00 |
|
|
|
491b317752
|
added depricated shell scripts
|
2021-02-10 10:36:02 +00:00 |
|
|
|
98287b3c20
|
updated testing cmds for foldx
|
2021-02-10 10:32:09 +00:00 |
|
|
|
ab7bed9f4b
|
added test2/ for testing updated foldx script
|
2021-02-10 10:16:28 +00:00 |
|
