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59eaf58747
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now definitely checked for all targets
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2022-01-18 17:43:21 +00:00 |
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b9d173a2c4
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checked combining_dfs.R for all targets
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2022-01-18 17:42:04 +00:00 |
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e2cdee2d08
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added additional check in combining_df_plotting.R to account for check when generating merged_df2 as muts NOT present in mcsm can create trouble, so fixed that and ran it successfully for alr and katg
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2022-01-18 17:36:54 +00:00 |
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8f8a9db92c
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tried ED logo, but needs work
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2022-01-18 16:53:16 +00:00 |
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00094f036a
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playing with MSA plots to allow filtering of positions, arghhh
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2022-01-18 15:30:41 +00:00 |
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4e779b2945
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saving work
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2022-01-18 11:14:25 +00:00 |
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c8c4afb28a
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added logoP_msa.R
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2022-01-17 19:11:48 +00:00 |
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68a092037b
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finding seq discrepancy in MSA for embb
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2022-01-17 19:11:10 +00:00 |
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af04c69d66
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A MAAAADDD MAAADDD DAYYYYY,messy embb numbering agrrrhhhhh
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2022-01-16 18:34:49 +00:00 |
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07aedfe286
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added both test logo plots in one script
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2022-01-16 15:00:54 +00:00 |
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efe6703673
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attempted omitting snp from logo plot for OR
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2022-01-16 14:45:39 +00:00 |
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1244581cdd
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just added some minor tweaks for the logo plots with OR
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2022-01-16 13:31:32 +00:00 |
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9546355241
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updated and tested logoP_snp.R. All done nicely
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2022-01-15 13:17:26 +00:00 |
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0334188801
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adde tests scripts for logoP and logoP_snp.R
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2022-01-14 16:10:49 +00:00 |
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f640087922
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added logoP_snp.R and renamed logo_plots_func.R to logoP.R
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2022-01-14 16:09:57 +00:00 |
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f27b536157
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added option to remove empty positions from logo plot
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2022-01-14 11:07:16 +00:00 |
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4e2f5f35db
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added log option to function properly
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2022-01-14 10:50:56 +00:00 |
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3b7cea3c47
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adding legend forlogo plot
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2022-01-14 10:18:01 +00:00 |
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426a5cb0b5
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added logo_plot function and test to check it
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2022-01-13 18:55:13 +00:00 |
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344a74a9e1
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saving work for logo plots
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2022-01-13 18:53:47 +00:00 |
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7cbd9b4996
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added barebone notes for logo_plots_func.R
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2022-01-12 17:59:02 +00:00 |
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3f7bc908ec
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going through functions and script for interactive plots
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2022-01-12 17:58:16 +00:00 |
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1f266c4cb8
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more tidying and formatting for combining_dfs.py. Hopefully no more after today
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2022-01-11 17:51:28 +00:00 |
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c48fa1dbb0
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minor tidy up to check interactive graphs Rshiny
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2022-01-07 16:07:44 +00:00 |
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7d60a09297
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tidy up
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2022-01-06 16:38:59 +00:00 |
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bffa3c376c
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thorough checking and updates for final running of all gene targets
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2022-01-05 17:55:35 +00:00 |
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b66cf31219
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added untracked files in scripts/plotting
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2022-01-04 12:27:25 +00:00 |
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3ab6a3dbc1
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added untracked files in scripts and dynamut
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2022-01-04 12:26:54 +00:00 |
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00b84ccb1c
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handled rpob 5uhc position offset in mcsm_ppi2
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2022-01-04 10:45:29 +00:00 |
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46e2c93885
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merged changes from the combining_dfs.py file from branch 'embb_dev'
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2021-11-24 07:58:27 +00:00 |
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e5aca5e24f
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fixed the duplicate colum problem by removing them from combining_dfs.py
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2021-11-24 07:57:20 +00:00 |
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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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