Custom codes for analyzing single bacteria total-RNA-seq data by smRandom-seq

Sequencing data pre-processing: Raw_data_preprocessing.sh
Count matrix generating: Count_matrix.sh & Select_result.py

Validation of smRandom-seq:
Fig. 2f, Supplementary Fig. 9: Correlation_of_gene_expression.R
Fig.2h: Saturation_analysis.sh
Fig.2k: Technical_reproducibility.py
Supplementary Fig. 7: Genebody_coverage.sh
Downstream analysis of the antibiotic-treated samples:
Figs. 3c-e, Fig. 3g, Fig. 3h, Supp. Fig. 11: CIP_antibiotic_treatment.py
Figs. 4b-o, Supp. Fig. 13, Supp. Figs. 14a-d, Supp. Fig.14h: AMP_antibiotic_treatment.py
Fig. 3f, Supp. Figs. e-g: GO_enrichment.R