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Tanushree Tunstall 26d0d7f42d updated notes with supp table colnames
2020-09-10 20:15:00 +01:00
foldx fixed white space prob with mcsm input with merge 2020-07-14 14:07:23 +01:00
mcsm fixed white space prob with mcsm input with merge 2020-07-14 14:07:23 +01:00
mcsm_analysis_fixme/pyrazinamide/scripts mean stability values calcs and replaceBfactor plots 2020-07-16 14:12:08 +01:00
meta_data_analysis refactoring: added command line args to combine_dfs 2020-04-08 11:44:53 +01:00
plotting_test logoplot from df and seqs with custom height 2020-03-29 17:11:17 +01:00
scripts updated notes with supp table colnames 2020-09-10 20:15:00 +01:00
.gitignore Merge branch 'master' of github.com:tgttunstall/LSHTM_analysis 2020-09-10 16:14:46 +01:00
LICENCE added licence 2020-01-08 16:51:47 +00:00
mk_drug_dirs.sh refactoring code to make it take command line args 2020-04-06 19:03:41 +01:00
my_header.R added R header file to base dir to allow general access by R scripts 2020-03-28 17:56:39 +00:00
README.md various debug, doc, and args 2020-05-25 14:27:25 +01:00

README.md

mCSM Analysis

This contains scripts that does the following:

  1. mCSM analysis: using bash, python and R
  2. meta data analysis: using python and R

Requires an additional 'Data' directory. Batteries not included:-)

Assumptions

  1. git repos are cloned to ~/git
  2. Requires a data directory with an input and output subdirs. Can be specified on the CLI with --datadir, and optionally can be created with mk_drug_dirs.sh <DRUG_NAME>

LSHTM_analysis:

subdirs within this repo

 meta\_data\_analysis/
 	*.R
 	*.py
	
 mcsm_analysis
#	<drug>/

 foldx_analysis
 
 plotting
 	*.R

More docs here as I write them.