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• c1d9781cb2 added config/ with drug gene names Tanushree Tunstall 2021-09-16 10:05:28 +01:00
• 56600ac3f8 added config/ with drug gene names Tanushree Tunstall 2021-09-16 10:05:28 +01:00
• d63980bb01 saving work for the day after massive repurpose Tanushree Tunstall 2021-09-15 19:48:56 +01:00
• 746889b075 saving work for the day after massive repurpose Tanushree Tunstall 2021-09-15 19:48:56 +01:00
• c06b0eb696 moved coloured_bp_data.R to redundant in light of updated function and reflected this in notes withing get_plotting_dfs.R Tanushree Tunstall 2021-09-15 19:42:08 +01:00
• 1d16c6848e moved coloured_bp_data.R to redundant in light of updated function and reflected this in notes withing get_plotting_dfs.R Tanushree Tunstall 2021-09-15 19:42:08 +01:00
• a5b6edab39 saving work and tidying script Tanushree Tunstall 2021-09-15 19:37:39 +01:00
• 96e6e8db5d saving work and tidying script Tanushree Tunstall 2021-09-15 19:37:39 +01:00
• 6d542e7634 added the scratch script as _v2 to play while repurposing bp_subcolours.R Tanushree Tunstall 2021-09-15 19:34:24 +01:00
• f0e66b2f7b added the scratch script as _v2 to play while repurposing bp_subcolours.R Tanushree Tunstall 2021-09-15 19:34:24 +01:00
• 1f19c26c2d added test_bp_subcolours.R Tanushree Tunstall 2021-09-15 19:33:52 +01:00
• 2ac5ec410e added test_bp_subcolours.R Tanushree Tunstall 2021-09-15 19:33:52 +01:00
• 5c252db1fa added wideplot subcols generation within bp_subcolours.R to make it easier to call the whole thing as a function and use merged_df3 to generate plot without having to separately generate special data for it. Tested with real data on different stability params Tanushree Tunstall 2021-09-15 19:29:09 +01:00
• 7550efbd4c added wideplot subcols generation within bp_subcolours.R to make it easier to call the whole thing as a function and use merged_df3 to generate plot without having to separately generate special data for it. Tested with real data on different stability params Tanushree Tunstall 2021-09-15 19:29:09 +01:00
• 664d43f717 fixed pos_count cals in function by specifying dplyr and changed summarize to summarise Tanushree Tunstall 2021-09-15 15:46:42 +01:00
• 449af7acf4 fixed pos_count cals in function by specifying dplyr and changed summarize to summarise Tanushree Tunstall 2021-09-15 15:46:42 +01:00
• 6beb003de5 more updates to pairs_panels to take colnames for plotting Tanushree Tunstall 2021-09-14 18:20:12 +01:00
• bf432cd054 more updates to pairs_panels to take colnames for plotting Tanushree Tunstall 2021-09-14 18:20:12 +01:00
• 036cc14e40 updated my_pairs_panel.R to make the dots coloured Tanushree Tunstall 2021-09-14 15:36:05 +01:00
• b98977336c updated my_pairs_panel.R to make the dots coloured Tanushree Tunstall 2021-09-14 15:36:05 +01:00
• 1249a08fb9 added pretty colnames to corr_data.R Tanushree Tunstall 2021-09-13 10:24:41 +01:00
• 996d67b423 added pretty colnames to corr_data.R Tanushree Tunstall 2021-09-13 10:24:41 +01:00
• dc5b5e2f11 added shorter scripts for each different processing for plots to make it wasire to read code Tanushree Tunstall 2021-09-10 18:20:45 +01:00
• 3f3fe89a6b added shorter scripts for each different processing for plots to make it wasire to read code Tanushree Tunstall 2021-09-10 18:20:45 +01:00
• 96129ddc34 tidied script plotting_data.R by removing superceded code Tanushree Tunstall 2021-09-10 18:19:56 +01:00
• 27f0b15d4c tidied script plotting_data.R by removing superceded code Tanushree Tunstall 2021-09-10 18:19:56 +01:00
• c38462cf41 finally moved foldx_outcome and deepddg_outcome calcs to combine_dfs.py in python script i.e cleaned source data Tanushree Tunstall 2021-09-10 18:19:01 +01:00
• 3ddbee8c90 finally moved foldx_outcome and deepddg_outcome calcs to combine_dfs.py in python script i.e cleaned source data Tanushree Tunstall 2021-09-10 18:19:01 +01:00
• e28be8bf0d sorted combining_dfs.py with all other data files and tidied up get_plotting_dfs.R Tanushree Tunstall 2021-09-10 18:16:41 +01:00
• 5c8a9e8f00 sorted combining_dfs.py with all other data files and tidied up get_plotting_dfs.R Tanushree Tunstall 2021-09-10 18:16:41 +01:00
• 4339976002 added foldx_scaled and deepddg_scaled values added to combine_df.py and also used that script to merge all the dfs so that merged_df2 and merged_df3 are infact what we need for downstream processing Tanushree Tunstall 2021-09-10 16:58:36 +01:00
• 4ba4ff602e added foldx_scaled and deepddg_scaled values added to combine_df.py and also used that script to merge all the dfs so that merged_df2 and merged_df3 are infact what we need for downstream processing Tanushree Tunstall 2021-09-10 16:58:36 +01:00
• 9a18888f56 moved old lineage_dist plot scripts to redundant Tanushree Tunstall 2021-09-09 16:16:18 +01:00
• dda5d1ea93 moved old lineage_dist plot scripts to redundant Tanushree Tunstall 2021-09-09 16:16:18 +01:00
• f489b0625f added lineage_dist_plots.R Tanushree Tunstall 2021-09-09 16:15:07 +01:00
• 2bd85f7021 added lineage_dist_plots.R Tanushree Tunstall 2021-09-09 16:15:07 +01:00
• 66d45a8b73 added lineage_dist.R nad renamed lineage_bp_data file to lineage_data Tanushree Tunstall 2021-09-09 16:14:14 +01:00
• 93038fa17c added lineage_dist.R nad renamed lineage_bp_data file to lineage_data Tanushree Tunstall 2021-09-09 16:14:14 +01:00
• cdab8f0414 added lineage_labels and mutation_info_labels to combinig_dfs_plotting Tanushree Tunstall 2021-09-09 16:10:11 +01:00
• b7d50fbbcd added lineage_labels and mutation_info_labels to combinig_dfs_plotting Tanushree Tunstall 2021-09-09 16:10:11 +01:00
• 9bb3ac2a01 moved all test scripts for functions to tests/ Tanushree Tunstall 2021-09-09 13:12:07 +01:00
• 03031d2eb6 moved all test scripts for functions to tests/ Tanushree Tunstall 2021-09-09 13:12:07 +01:00
• 901f3896af updated notes Tanushree Tunstall 2021-09-07 11:18:10 +01:00
• 2ee66c770b updated notes Tanushree Tunstall 2021-09-07 11:18:10 +01:00
• bc89534f64 updated running_plotting_scripts.R Tanushree Tunstall 2021-09-07 11:16:41 +01:00
• 686fd0cd80 updated running_plotting_scripts.R Tanushree Tunstall 2021-09-07 11:16:41 +01:00
• ebca0f4221 moved old lineage_basic_barplot.R to redundant Tanushree Tunstall 2021-09-07 10:52:26 +01:00
• c9519b3b56 moved old lineage_basic_barplot.R to redundant Tanushree Tunstall 2021-09-07 10:52:26 +01:00
• 7dc72fb118 replaced old lineage barplot with count and diversity combined plots sourced from function Tanushree Tunstall 2021-09-07 09:27:47 +01:00
• 3cee341170 replaced old lineage barplot with count and diversity combined plots sourced from function Tanushree Tunstall 2021-09-07 09:27:47 +01:00
• 357ceb8920 one function with tuned params to generate count and diversity barplot Tanushree Tunstall 2021-09-06 19:52:56 +01:00
• 50b89cdcd7 one function with tuned params to generate count and diversity barplot Tanushree Tunstall 2021-09-06 19:52:56 +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 Tanushree Tunstall 2021-09-06 19:50:50 +01:00
• 869fca7f94 added function for generating lineage barplots and also test script along wiadding script for processing data and added it to get_plotting_dfs.R Tanushree Tunstall 2021-09-06 19:50:50 +01:00
• 343f867eed saving work for the day Tanushree Tunstall 2021-09-02 17:40:24 +01:00
• 605eb54526 saving work for the day Tanushree Tunstall 2021-09-02 17:40:24 +01:00
• 55233ea474 separated get_plotting_dfs_with_lig.R Tanushree Tunstall 2021-09-02 12:51:31 +01:00
• a981580b7a separated get_plotting_dfs_with_lig.R Tanushree Tunstall 2021-09-02 12:51:31 +01:00
• 2c65bb25d8 modified bp with option for adding stats and boxplplots. Moved old one to redundant Tanushree Tunstall 2021-09-02 12:50:24 +01:00
• fcb4b85747 modified bp with option for adding stats and boxplplots. Moved old one to redundant Tanushree Tunstall 2021-09-02 12:50:24 +01:00
• c8e21b928c added functions for bp with stat and tested them Tanushree Tunstall 2021-08-27 14:05:00 +01:00
• 826d3c72b7 added functions for bp with stat and tested them Tanushree Tunstall 2021-08-27 14:05:00 +01:00
• 873049b603 renamed dm_om barplot function scriptto lf_bp_stability.R Tanushree Tunstall 2021-08-27 13:03:39 +01:00
• edb409baef renamed dm_om barplot function scriptto lf_bp_stability.R Tanushree Tunstall 2021-08-27 13:03:39 +01:00
• 14d1ec84ab added function for stats from lf data Tanushree Tunstall 2021-08-27 13:01:52 +01:00
• da9bb67706 added function for stats from lf data Tanushree Tunstall 2021-08-27 13:01:52 +01:00
• eb19efd287 added stat_bp_stability.R which needs to be a function for generating stat plots Tanushree Tunstall 2021-08-26 16:37:56 +01:00
• 6e01ef22c0 added stat_bp_stability.R which needs to be a function for generating stat plots Tanushree Tunstall 2021-08-26 16:37:56 +01:00
• e36e7736db playing with dm_om (other)plots data and graph on gid branch Tanushree Tunstall 2021-08-26 16:35:46 +01:00
• 6d9412d232 playing with dm_om (other)plots data and graph on gid branch Tanushree Tunstall 2021-08-26 16:35:46 +01:00
• 1e3670f935 added log10 OR and P values to myaf_or_calcs.R Tanushree Tunstall 2021-08-23 20:01:01 +01:00
• 0e44958585 added log10 OR and P values to myaf_or_calcs.R Tanushree Tunstall 2021-08-23 20:01:01 +01:00
• 0c16937b68 added corr plots as function for interactive graphs on shiny Tanushree Tunstall 2021-08-20 18:52:47 +01:00
• 182465d579 added corr plots as function for interactive graphs on shiny Tanushree Tunstall 2021-08-20 18:52:47 +01:00
• c0c30fd527 adde format_results_dynamut2.py and ran shiny scripts for barplots Tanushree Tunstall 2021-08-19 16:25:38 +01:00
• f7aac58081 adde format_results_dynamut2.py and ran shiny scripts for barplots Tanushree Tunstall 2021-08-19 16:25:38 +01:00
• 9cb33ed67b added pdb_fasta_plot.R for generating some useful plots for shiny Tanushree Tunstall 2021-08-17 10:55:06 +01:00
• 8cdf720702 added pdb_fasta_plot.R for generating some useful plots for shiny Tanushree Tunstall 2021-08-17 10:55:06 +01:00
• 067fc85163 extracting gid seq from pdb file using pdbtools Tanushree Tunstall 2021-08-17 10:53:26 +01:00
• 8de22e14f3 extracting gid seq from pdb file using pdbtools Tanushree Tunstall 2021-08-17 10:53:26 +01:00
• 9b1d1d009d added aa_index/ with script that return dfs for plots for shiny perhaps Tanushree Tunstall 2021-08-13 16:22:11 +01:00
• 2511162a1d added aa_index/ with script that return dfs for plots for shiny perhaps Tanushree Tunstall 2021-08-13 16:22:11 +01:00
• 1ea42097ae added dynamut results formatting scripts, althouh needs to be rerun once b7 completes Tanushree Tunstall 2021-08-13 13:24:22 +01:00
• 5529fbf63d added dynamut results formatting scripts, althouh needs to be rerun once b7 completes Tanushree Tunstall 2021-08-13 13:24:22 +01:00
• 2e9d142184 indicated f for format for mcms_na formatting script Tanushree Tunstall 2021-08-13 13:23:42 +01:00
• 64669eb05f indicated f for format for mcms_na formatting script Tanushree Tunstall 2021-08-13 13:23:42 +01:00
• 2eee69ee80 saving work Tanushree Tunstall 2021-08-12 17:37:56 +01:00
• 5232731bc5 saving work Tanushree Tunstall 2021-08-12 17:37:56 +01:00
• 938dba7fcc extracted results for dynamut gid bissection b10_21 Tanushree Tunstall 2021-08-12 17:35:12 +01:00
• 8fbf5bcadd extracted results for dynamut gid bissection b10_21 Tanushree Tunstall 2021-08-12 17:35:12 +01:00
• 59a370b45a Merge branch 'master' into gidb_dev Tanushree Tunstall 2021-08-12 15:35:28 +01:00
• efe5e0e391 Merge branch 'master' into gidb_dev Tanushree Tunstall 2021-08-12 15:35:28 +01:00
• 3086972480 minor tidy up for script submit_dynamut Tanushree Tunstall 2021-08-12 15:33:57 +01:00
• fed8cd83a0 minor tidy up for script submit_dynamut Tanushree Tunstall 2021-08-12 15:33:57 +01:00
• a641347f63 reran b7 since previous run file output was 0 bytes Tanushree Tunstall 2021-08-12 15:29:36 +01:00
• 93fae9e5f5 reran b7 since previous run file output was 0 bytes Tanushree Tunstall 2021-08-12 15:29:36 +01:00
• e48f215227 ran b9 and b10 for gid after Dynamut team reran due to server issues Tanushree Tunstall 2021-08-12 10:06:43 +01:00
• ca07351086 ran b9 and b10 for gid after Dynamut team reran due to server issues Tanushree Tunstall 2021-08-12 10:06:43 +01:00
• 96277d78f6 saving dynamut and mcsm_na jobs submitted and retrieved Tanushree Tunstall 2021-08-11 17:32:15 +01:00
• cf0db2a9c0 saving dynamut and mcsm_na jobs submitted and retrieved Tanushree Tunstall 2021-08-11 17:32:15 +01:00