/transcription_T7_analysis

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

Primary LanguagePythonBSD 3-Clause "New" or "Revised" LicenseBSD-3-Clause

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.