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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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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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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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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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ab7bed9f4b
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added test2/ for testing updated foldx script
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2021-02-10 10:16:28 +00:00 |
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5e735af323
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adding and saving files
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2021-02-09 18:30:47 +00:00 |
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1f8cfc2403
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test2 bugfixes
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2021-02-08 15:24:22 +00:00 |
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08ad16adbb
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added chain_extract.py and pdb_chain_extract.py
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2020-11-30 14:11:46 +00:00 |
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fc4313045f
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adding options to specify files by user
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2020-11-27 13:02:15 +00:00 |
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20bba2ad70
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added my_pdbtools containing pdbtools cloned from a git repo
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2020-11-17 13:56:23 +00:00 |
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802522d1c6
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updating notes to running_scripts.py as running for another drug-target
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2020-11-17 13:55:16 +00:00 |
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ac5b86a9cd
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modified running script to mention chain info for foldx
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2020-11-16 16:16:24 +00:00 |
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2ac4ea8f5c
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added script to interrogate pdb files mainly for res numbers
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2020-11-16 16:01:31 +00:00 |
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ccdd6029be
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updated results summary in the data_extraction.py
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2020-11-12 17:05:29 +00:00 |
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f9fd74812a
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handling missing dir for data_extraction.py
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2020-11-12 13:21:06 +00:00 |
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b0b9e91af7
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added what is required as a minimum to run data_extraction
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2020-11-06 19:04:27 +00:00 |
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b2284f7216
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added base histogram script for af and or
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2020-10-13 13:38:17 +01:00 |
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1f9ea3f789
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added ns prefix to SNPs for unambiguity
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2020-10-13 13:37:22 +01:00 |
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59911687c8
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changing labels in graphs for frontiers journal
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2020-10-09 13:10:08 +01:00 |
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2f1f02e1de
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renamed other_plots.R to other_plots_combined.R and changing labels to capital letters for journal
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2020-10-09 12:17:24 +01:00 |
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667804ad83
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saving work minor changes perhaps
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2020-10-08 16:03:12 +01:00 |
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7f5ca7f5a4
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added af and OR columns in the data
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2020-10-06 19:39:59 +01:00 |
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69f3629cc0
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indicated hardcoded active site residues for pnca
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2020-10-06 19:12:32 +01:00 |
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be50636b15
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script to subset data for dnds cals
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2020-10-06 19:11:34 +01:00 |
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4285bbd59f
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added barplot_subcolours_aa_combined.R to combine and label these plots
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2020-10-06 18:43:20 +01:00 |
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18b6407539
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adjusted x axis position label for barplot_subcols_aa_LIG.R
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2020-10-06 18:42:24 +01:00 |
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9784cba232
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generated labelled ps_plots_combined.R and capital "P" for position in barplots coloured aa for Lig
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2020-10-06 18:15:50 +01:00 |
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e60b4c5492
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output corr plots with coloured dots
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2020-10-06 17:47:24 +01:00 |
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9d2d6cfd84
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updated TASK in hist_af_or_combined.R
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2020-10-06 16:43:59 +01:00 |
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a549e52825
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renamed dist_plots.R to dist_plots_check.R as its exploratory
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2020-10-06 16:39:24 +01:00 |
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5f441d09d9
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added hist_af_or_combined.R to generate plots for output and moved previosu run to scratch_plots/
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2020-10-06 16:33:25 +01:00 |
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f240c969ec
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added hist_af.R
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2020-10-06 15:07:42 +01:00 |
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74c4ef16ae
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added basic_barplots_foldx.R for supp figure
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2020-10-06 09:53:34 +01:00 |
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4c345ea9f4
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moved not required plots to scratch
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2020-10-06 09:52:54 +01:00 |
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9597997741
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saving predictions script
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2020-09-30 14:09:08 +01:00 |
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8a6c7968f5
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added predictions for ps and lig and output to results
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2020-09-30 13:12:05 +01:00 |
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a77b472dfa
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added prediction.R to do logistic regression
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2020-09-30 10:04:49 +01:00 |
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d2093e7a4c
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added ../data_extraction_epistasis.py for getting list for epistasis work
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2020-09-29 16:09:54 +01:00 |
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81796df71a
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added corr_data.R corr_PS_LIG_all.R corr_PS_LIG_v2.R
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2020-09-29 16:08:25 +01:00 |
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c58fa8cd4d
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added dist_plot.R to generate plots for writing results
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2020-09-23 19:24:42 +01:00 |
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48050752db
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added more analysis in extreme_muts.R to be tidied later
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2020-09-23 19:23:34 +01:00 |
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a3aab4556a
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added fold and duet agreement to extreme_muts.R
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2020-09-23 11:20:22 +01:00 |
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