PNorvaisas / 5fu_knockouts

Analysis for Scott et al. 2017 Cell paper

5FU_knockouts

Analysis for Scott et al. 2017 Cell paper

3-way screen

• Keio_BacGrowth_comparison.R - E. coli and C. elegans data comparison
• Keio_BacGrowth_dataprep.R - E. coli bacterial growth data preparation
• Keio_CelDevelopment_dataprep.R - C. elegans developmental assays data preparation
• Keio_Data_merge.R - Join E. coli and C. elegans data
• Keio_Venn.R - Generate Venn diagrams
• Keio_enichment_annotations.R - Collect pathway annotations for enrichment
• Keio_enrichment.R - Pathway enrichment analysis
• Keio_plotting.R - Plot all data

E. coli metabolomics

• Leo_Metabolomics.R - E. coli metabolomics analysis

Other

• Bacrunch.py - Clean and transform plate reader data
• Citations.R - Package citation for paper
• Cofactors.py - Find enzymes which use PLP based on EcoCyc information
• Leo_GFP.R - GFP fluorescence analysis