tanu/LSHTM_analysis
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LSHTM_analysis/scripts/functions
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Tanushree Tunstall b72ffb5d2c just tested logo plot msa with embb after correcting the OMINOUS fasta file
2022-01-19 18:57:04 +00:00
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redundant added the scratch script as _v2 to play while repurposing bp_subcolours.R 2021-09-15 19:34:24 +01:00
tests just tested logo plot msa with embb after correcting the OMINOUS fasta file 2022-01-19 18:57:04 +00:00
aa_prop_bp.R added first line to all func to run from 2021-06-24 10:02:14 +01:00
bp_lineage.R replaced old lineage barplot with count and diversity combined plots sourced from function 2021-09-07 09:27:47 +01:00
bp_subcolours.R saving work and tidying script 2021-09-15 19:37:39 +01:00
combining_dfs_plotting.R 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
lf_bp.R saving minor update to function fix 2021-09-17 13:35:48 +01:00
lf_unpaired_stats.R added function for stats from lf data 2021-08-27 13:01:52 +01:00
lineage_dist.R added lineage_dist.R nad renamed lineage_bp_data file to lineage_data 2021-09-09 16:14:14 +01:00
logoP.R attempted omitting snp from logo plot for OR 2022-01-16 14:45:39 +00:00
logoP_msa.R tried ED logo, but needs work 2022-01-18 16:53:16 +00:00
logoP_snp.R finding seq discrepancy in MSA for embb 2022-01-17 19:11:10 +00:00
my_pairs_panel.R fixed pos_count cals in function by specifying dplyr and changed summarize to summarise 2021-09-15 15:46:42 +01:00
myaf_or_calcs.R added log10 OR and P values to myaf_or_calcs.R 2021-08-23 20:01:01 +01:00
mychisq_or.R added first line to all func to run from 2021-06-24 10:02:14 +01:00
plotting_data.R 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
plotting_globals.R going through functions and script for interactive plots 2022-01-12 17:58:16 +00:00
position_count_bp.R fixed pos_count cals in function by specifying dplyr and changed summarize to summarise 2021-09-15 15:46:42 +01:00
stability_count_bp.R minor bug fixes to allow i_graps for stability to render correctly 2021-09-16 18:59:02 +01:00