koszullab / transcription_T7_analysis

In this repository, we present the code for the analysis of study of the transcription's impact on Escherichia coli chromosome.

T7 promoter transcription analysis

In this repository, we present the code for the analysis of study of the transcription's impact on Escherichia coli chromosome described in this paper.

Requirements

• Conda, Package, dependency and environment management for any language.
• Snakemake, Workflow management system.
• Go, programming language.
• Dnaglider, Command line utility to compute sliding window genome statistics from a fasta file.

Usage

To launch the analysis clone this repository.

git clone https://github.com/ABignaud/transcription_T7_analysis.git
cd transcription_T7_analysis
snakemake -j 32 --use-conda 

Citation

Transcriptional units form the elementary constraining building blocks of the bacterial chromosome, A. Bignaud, C. Cockram, E. Allemand, J. Mozziconnacci, O. Espeli, R. Koszul, BioArXiv, 2022.