Code deposited for paper "Chemical-genetic profiling reveals limited cross-resistance between antimicrobial peptides with different modes of action", Kintses et al. Nature Communications
The programs are written in R.
script folder
- script/cg01_RemoveBackground.R
- script/cg02_rescaleData.R
- script/cg03_plotsOfDataAfterBgRemoveAndRescale.R Generates figures to visualise data grouped by treatments. It is not needed for further analysis.
- script/cg04_plotRawBarplotsForEachLine.R Generates figures to visualise data grouped by genes. It is not needed for further analysis.
- script/cg05_normalizationOfBimodalDist.R Normalizes data.
- script/functions-for-chemogenomic-project.R Contains some helper functions.
- script/pdfTools.R Contains some additional helper functions for the normalization script.
data folder
- It contains the input files of the scripts
- data/dataTable1-expression_values_of_sequencing.csv - this file contains the read numbers from the sequencing
- data/batch-structure.csv - this table describes which data columns come from the same assay
- all the intermediate data tables will be placed here.