|
|
4639688922
|
added gene.lower to dynamut2 format result script
|
2021-10-19 11:12:34 +01:00 |
|
|
|
9ed9e703d6
|
added notes
|
2021-10-18 13:58:06 +01:00 |
|
|
|
a67a07db2d
|
added cmd option for dynamut2 formatting results
|
2021-10-18 13:52:29 +01:00 |
|
|
|
68288a0efd
|
added separate script for splitting csv after adding chain ID. saves lots of post processing
|
2021-09-20 16:13:15 +01:00 |
|
|
|
f4ebb07045
|
split csv for isoniazid
|
2021-09-20 16:12:45 +01:00 |
|
|
|
7ba6868b60
|
added function for generating lineage barplots and also test script along wiadding script for processing data and added it to get_plotting_dfs.R
|
2021-09-06 19:50:50 +01:00 |
|
|
|
343f867eed
|
saving work for the day
|
2021-09-02 17:40:24 +01:00 |
|
|
|
c0c30fd527
|
adde format_results_dynamut2.py and ran shiny scripts for barplots
|
2021-08-19 16:25:38 +01:00 |
|
|
|
1ea42097ae
|
added dynamut results formatting scripts, althouh needs to be rerun once b7 completes
|
2021-08-13 13:24:22 +01:00 |
|
|
|
2eee69ee80
|
saving work
|
2021-08-12 17:37:56 +01:00 |
|
|
|
938dba7fcc
|
extracted results for dynamut gid bissection b10_21
|
2021-08-12 17:35:12 +01:00 |
|
|
|
59a370b45a
|
Merge branch 'master' into gidb_dev
|
2021-08-12 15:35:28 +01:00 |
|
|
|
3086972480
|
minor tidy up for script submit_dynamut
|
2021-08-12 15:33:57 +01:00 |
|
|
|
a641347f63
|
reran b7 since previous run file output was 0 bytes
|
2021-08-12 15:29:36 +01:00 |
|
|
|
e48f215227
|
ran b9 and b10 for gid after Dynamut team reran due to server issues
|
2021-08-12 10:06:43 +01:00 |
|
|
|
96277d78f6
|
saving dynamut and mcsm_na jobs submitted and retrieved
|
2021-08-11 17:32:15 +01:00 |
|
|
|
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 |
|
|
|
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 |
|
|
|
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 |
|
|
|
7a74fecbda
|
saving work for mcsm_na
|
2021-02-15 12:22:19 +00:00 |
|
|
|
1f72001689
|
added shell script to format muts for mcsm NA
|
2021-02-12 17:38:42 +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 |
|
|
|
56ca9db40d
|
added script to submit jobs
|
2021-02-09 20:16:27 +00:00 |
|
|
|
0c95b3a512
|
testing dynamut script
|
2021-02-09 18:28:16 +00:00 |
|
|
|
64018cce4c
|
added dynamut dir
|
2021-02-09 16:11:07 +00:00 |
|
