|
|
1c1e98ad4f
|
added get_logo_heights() in my_logolas.R
|
2022-01-26 11:16:02 +00:00 |
|
|
|
92af9fd565
|
combined logolas and raw data msa plots into 1 script and called it the same as before logoP_msa.R
|
2022-01-26 11:06:04 +00:00 |
|
|
|
6365fff858
|
moved logoP_msa_raw to redundant
|
2022-01-26 11:04:21 +00:00 |
|
|
|
3bc5dcbad3
|
renamed logoP_msa.R --> logoP_msa_raw.R
|
2022-01-26 11:03:45 +00:00 |
|
|
|
6a9f4a0cab
|
added logoP_logolas.R to plot logolas like plot to show ED regions
|
2022-01-24 17:23:32 +00:00 |
|
|
|
9aa62b33b1
|
added my_logolas.R
|
2022-01-24 13:46:50 +00:00 |
|
|
|
febb8f0f7f
|
checked embb logo msa plot with chosen positions
|
2022-01-19 19:04:43 +00:00 |
|
|
|
b72ffb5d2c
|
just tested logo plot msa with embb after correcting the OMINOUS fasta file
|
2022-01-19 18:57:04 +00:00 |
|
|
|
59eaf58747
|
now definitely checked for all targets
|
2022-01-18 17:43:21 +00:00 |
|
|
|
b9d173a2c4
|
checked combining_dfs.R for all targets
|
2022-01-18 17:42:04 +00:00 |
|
|
|
e2cdee2d08
|
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
|
2022-01-18 17:36:54 +00:00 |
|
|
|
8f8a9db92c
|
tried ED logo, but needs work
|
2022-01-18 16:53:16 +00:00 |
|
|
|
00094f036a
|
playing with MSA plots to allow filtering of positions, arghhh
|
2022-01-18 15:30:41 +00:00 |
|
|
|
4e779b2945
|
saving work
|
2022-01-18 11:14:25 +00:00 |
|
|
|
c8c4afb28a
|
added logoP_msa.R
|
2022-01-17 19:11:48 +00:00 |
|
|
|
68a092037b
|
finding seq discrepancy in MSA for embb
|
2022-01-17 19:11:10 +00:00 |
|
|
|
07aedfe286
|
added both test logo plots in one script
|
2022-01-16 15:00:54 +00:00 |
|
|
|
efe6703673
|
attempted omitting snp from logo plot for OR
|
2022-01-16 14:45:39 +00:00 |
|
|
|
1244581cdd
|
just added some minor tweaks for the logo plots with OR
|
2022-01-16 13:31:32 +00:00 |
|
|
|
9546355241
|
updated and tested logoP_snp.R. All done nicely
|
2022-01-15 13:17:26 +00:00 |
|
|
|
0334188801
|
adde tests scripts for logoP and logoP_snp.R
|
2022-01-14 16:10:49 +00:00 |
|
|
|
f640087922
|
added logoP_snp.R and renamed logo_plots_func.R to logoP.R
|
2022-01-14 16:09:57 +00:00 |
|
|
|
f27b536157
|
added option to remove empty positions from logo plot
|
2022-01-14 11:07:16 +00:00 |
|
|
|
4e2f5f35db
|
added log option to function properly
|
2022-01-14 10:50:56 +00:00 |
|
|
|
3b7cea3c47
|
adding legend forlogo plot
|
2022-01-14 10:18:01 +00:00 |
|
|
|
426a5cb0b5
|
added logo_plot function and test to check it
|
2022-01-13 18:55:13 +00:00 |
|
|
|
344a74a9e1
|
saving work for logo plots
|
2022-01-13 18:53:47 +00:00 |
|
|
|
7cbd9b4996
|
added barebone notes for logo_plots_func.R
|
2022-01-12 17:59:02 +00:00 |
|
|
|
3f7bc908ec
|
going through functions and script for interactive plots
|
2022-01-12 17:58:16 +00:00 |
|
|
|
c48fa1dbb0
|
minor tidy up to check interactive graphs Rshiny
|
2022-01-07 16:07:44 +00:00 |
|
|
|
3ab6a3dbc1
|
added untracked files in scripts and dynamut
|
2022-01-04 12:26:54 +00:00 |
|
|
|
5cd6c300a7
|
saving minor update to function fix
|
2021-09-17 13:35:48 +01:00 |
|
|
|
e115c3636c
|
fixed lf_bp function with aes_string and reformulate
|
2021-09-17 13:33:19 +01:00 |
|
|
|
e2d7a6567e
|
minor bug fixes to allow i_graps for stability to render correctly
|
2021-09-16 18:59:02 +01:00 |
|
|
|
51aa321792
|
sorting out bp_subcolours in interaction
|
2021-09-16 12:44:42 +01:00 |
|
|
|
e8734b1c4b
|
sorted merged_df2 and consequently others by position in combining_dfs_plotting.R
|
2021-09-16 12:43:36 +01:00 |
|
|
|
56600ac3f8
|
added config/ with drug gene names
|
2021-09-16 10:05:28 +01:00 |
|
|
|
96e6e8db5d
|
saving work and tidying script
|
2021-09-15 19:37:39 +01:00 |
|
|
|
f0e66b2f7b
|
added the scratch script as _v2 to play while repurposing bp_subcolours.R
|
2021-09-15 19:34:24 +01:00 |
|
|
|
2ac5ec410e
|
added test_bp_subcolours.R
|
2021-09-15 19:33:52 +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
|
2021-09-15 19:29:09 +01:00 |
|
|
|
449af7acf4
|
fixed pos_count cals in function by specifying dplyr and changed summarize to summarise
|
2021-09-15 15:46:42 +01:00 |
|
|
|
bf432cd054
|
more updates to pairs_panels to take colnames for plotting
|
2021-09-14 18:20:12 +01:00 |
|
|
|
b98977336c
|
updated my_pairs_panel.R to make the dots coloured
|
2021-09-14 15:36:05 +01:00 |
|
|
|
27f0b15d4c
|
tidied script plotting_data.R by removing superceded code
|
2021-09-10 18:19:56 +01:00 |
|
|
|
3ddbee8c90
|
finally moved foldx_outcome and deepddg_outcome calcs to combine_dfs.py in python script i.e cleaned source data
|
2021-09-10 18:19:01 +01:00 |
|
|
|
5c8a9e8f00
|
sorted combining_dfs.py with all other data files and tidied up get_plotting_dfs.R
|
2021-09-10 18:16:41 +01:00 |
|
|
|
93038fa17c
|
added lineage_dist.R nad renamed lineage_bp_data file to lineage_data
|
2021-09-09 16:14:14 +01:00 |
|
|
|
b7d50fbbcd
|
added lineage_labels and mutation_info_labels to combinig_dfs_plotting
|
2021-09-09 16:10:11 +01:00 |
|
|
|
03031d2eb6
|
moved all test scripts for functions to tests/
|
2021-09-09 13:12:07 +01:00 |
|
