59 lines
1.1 KiB
Markdown
59 lines
1.1 KiB
Markdown
mCSM Analysis
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=============
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This repo does mCSM analysis using Python (Pandas, numpy), bash and R.
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Requires an additional 'Data' directory (Supplied separately). Batteries not included.
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# directory struc
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# Assumptions
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1. git repos are cloned to `~/git`
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2. The script
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## LSHTM\_analysis: Repo
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subdirs
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needs to call `../Data/input/original/`
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meta\_data\_analysis/
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*.R
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*.py
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needs to call `../Data/input/processed/<drug>`
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needs to output `../Data/output/results/<drug>`
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mcsm\_analysis/
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<drug>/ (generated by `meta_data_analysis/pnca_data_extraction.py`. To be replaced with command line args or config option "soon")
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scripts/ (changed from `Scripts/`)
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*.R
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*.py
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mcsm/
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*.sh
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*.py
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*.R
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plotting/
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*.R
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Data: Repo:
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# subdirs
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input/
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original/
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processed/
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output/
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<drug>/ (generated by `meta_data_analysis/pnca_data_extraction.py`. To be replaced with command line args or config option "soon")
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results/
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*.csv
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*.xlsx
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*.doc
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*.txt
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plots/
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structure/
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More docs here as I write them.
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