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4f52627740
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Merge branch 'embb_dev'
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2021-11-19 08:05:46 +00:00 |
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2925c89d11
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ran mcsm_na for rpob's RNAP complex i.e 5UHC
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2021-11-19 07:48:42 +00:00 |
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cee10cc540
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ran mcsm format for embb
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2021-11-13 09:43:56 +00:00 |
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c32de1bf0f
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Merge branch 'embb_dev'
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2021-11-12 14:37:10 +00:00 |
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4eaa0b5d2b
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saving work after running combining_dfs.py
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2021-11-12 14:16:48 +00:00 |
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dad8f526a2
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added TESTING_plots.R
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2021-11-09 13:55:21 +00:00 |
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a5c7e1e9dd
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added FIXME and TODO related to alr in combinig_dfs.py
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2021-11-09 13:23:50 +00:00 |
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3368e949e8
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bring in embb stuff which was in the wrong branch
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2021-10-28 11:18:13 +01:00 |
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057291a561
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much development
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2021-10-28 10:41:43 +01:00 |
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675b222181
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added cmd option for dynamut2 formatting results
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2021-10-18 13:52:29 +01:00 |
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98325d763f
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fixed output filename in deepddg_format.py
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2021-09-30 13:37:17 +01:00 |
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af227f9864
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moved deepddg_format.py from ind output dir to scripts
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2021-09-30 13:35:33 +01:00 |
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5cd6c300a7
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saving minor update to function fix
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2021-09-17 13:35:48 +01:00 |
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e115c3636c
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fixed lf_bp function with aes_string and reformulate
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2021-09-17 13:33:19 +01:00 |
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e2d7a6567e
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minor bug fixes to allow i_graps for stability to render correctly
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2021-09-16 18:59:02 +01:00 |
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51aa321792
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sorting out bp_subcolours in interaction
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2021-09-16 12:44:42 +01:00 |
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e8734b1c4b
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sorted merged_df2 and consequently others by position in combining_dfs_plotting.R
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2021-09-16 12:43:36 +01:00 |
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cb5d7aa5ab
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corrected foldx_outcome classification in combining_dfs.py as positive are Destabilising and neg as Stabilising
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2021-09-16 10:59:55 +01:00 |
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56600ac3f8
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added config/ with drug gene names
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2021-09-16 10:05:28 +01:00 |
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746889b075
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saving work for the day after massive repurpose
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2021-09-15 19:48:56 +01:00 |
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1d16c6848e
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moved coloured_bp_data.R to redundant in light of updated function and reflected this in notes withing get_plotting_dfs.R
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2021-09-15 19:42:08 +01:00 |
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96e6e8db5d
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saving work and tidying script
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2021-09-15 19:37:39 +01:00 |
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f0e66b2f7b
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added the scratch script as _v2 to play while repurposing bp_subcolours.R
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2021-09-15 19:34:24 +01:00 |
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2ac5ec410e
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added test_bp_subcolours.R
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2021-09-15 19:33:52 +01:00 |
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7550efbd4c
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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
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2021-09-15 19:29:09 +01:00 |
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449af7acf4
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fixed pos_count cals in function by specifying dplyr and changed summarize to summarise
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2021-09-15 15:46:42 +01:00 |
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bf432cd054
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more updates to pairs_panels to take colnames for plotting
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2021-09-14 18:20:12 +01:00 |
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b98977336c
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updated my_pairs_panel.R to make the dots coloured
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2021-09-14 15:36:05 +01:00 |
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996d67b423
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added pretty colnames to corr_data.R
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2021-09-13 10:24:41 +01:00 |
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3f3fe89a6b
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added shorter scripts for each different processing for plots to make it wasire to read code
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2021-09-10 18:20:45 +01:00 |
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27f0b15d4c
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tidied script plotting_data.R by removing superceded code
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2021-09-10 18:19:56 +01:00 |
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3ddbee8c90
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finally moved foldx_outcome and deepddg_outcome calcs to combine_dfs.py in python script i.e cleaned source data
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2021-09-10 18:19:01 +01:00 |
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5c8a9e8f00
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sorted combining_dfs.py with all other data files and tidied up get_plotting_dfs.R
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2021-09-10 18:16:41 +01:00 |
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4ba4ff602e
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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
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2021-09-10 16:58:36 +01:00 |
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dda5d1ea93
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moved old lineage_dist plot scripts to redundant
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2021-09-09 16:16:18 +01:00 |
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2bd85f7021
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added lineage_dist_plots.R
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2021-09-09 16:15:07 +01:00 |
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93038fa17c
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added lineage_dist.R nad renamed lineage_bp_data file to lineage_data
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2021-09-09 16:14:14 +01:00 |
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b7d50fbbcd
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added lineage_labels and mutation_info_labels to combinig_dfs_plotting
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2021-09-09 16:10:11 +01:00 |
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03031d2eb6
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moved all test scripts for functions to tests/
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2021-09-09 13:12:07 +01:00 |
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2ee66c770b
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updated notes
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2021-09-07 11:18:10 +01:00 |
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686fd0cd80
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updated running_plotting_scripts.R
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2021-09-07 11:16:41 +01:00 |
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c9519b3b56
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moved old lineage_basic_barplot.R to redundant
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2021-09-07 10:52:26 +01:00 |
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3cee341170
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replaced old lineage barplot with count and diversity combined plots sourced from function
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2021-09-07 09:27:47 +01:00 |
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50b89cdcd7
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one function with tuned params to generate count and diversity barplot
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2021-09-06 19:52:56 +01:00 |
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869fca7f94
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added function for generating lineage barplots and also test script along wiadding script for processing data and added it to get_plotting_dfs.R
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2021-09-06 19:50:50 +01:00 |
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605eb54526
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saving work for the day
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2021-09-02 17:40:24 +01:00 |
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a981580b7a
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separated get_plotting_dfs_with_lig.R
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2021-09-02 12:51:31 +01:00 |
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fcb4b85747
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modified bp with option for adding stats and boxplplots. Moved old one to redundant
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2021-09-02 12:50:24 +01:00 |
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826d3c72b7
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added functions for bp with stat and tested them
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2021-08-27 14:05:00 +01:00 |
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edb409baef
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renamed dm_om barplot function scriptto lf_bp_stability.R
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2021-08-27 13:03:39 +01:00 |
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