Hi, we used SPAdes, according to this paper:

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

we had a complex of different organisms (rather than a single type that you have,) so it was more complicated, you can observe our paper here:

Article Characterization of a novel Pantoea symbiont allows inferenc...

Thank you very much. It is useful.

Yes, there are plenty of online tutorials and resources available for genome assembly of bacteria. One of the popular tools for this task is called SPAdes. You can find tutorials and documentation on how to use SPAdes for bacterial genome assembly on their official website or through various bioinformatics forums and websites.

Easy assembly of nanopore sequenced genome to give you a high qualify. My assembly was 99.4% completion. You don’t need to download any software just use command line. This is my paper Article Draft genome sequence of Paenibacillus sp. strain RC67, an i...

Thank you very much, Tran. Are there any online tutorials? It's easy to follow the steps.

Yes, there are several online tutorials available for genome assembly of bacteria. Here are a few resources you might find helpful:

1. **NCBI Genome Assembly Tutorial**: The National Center for Biotechnology Information (NCBI) provides a detailed tutorial on genome assembly using their tools and databases. You can find it on their website under the "NCBI Handbook" section.

2. **EBI Metagenomics Tutorial**: The European Bioinformatics Institute (EBI) offers tutorials on various aspects of bioinformatics, including genome assembly for bacteria. You can explore their website for relevant tutorials and resources.

3 **YouTube Tutorials**: Many bioinformatics experts and institutions share tutorials on genome assembly for bacteria on YouTube. You can search for specific tutorials tailored to your needs and preferences.

Remember to choose tutorials that align with your level of expertise and the tools you plan to use for genome assembly.

Shler Ali Khorshed Thank you very much for the detailed information!

I hope you benefited from the information

KBase is an online platform with many implemented tools and also examples to follow. Easy for starting as you don't need local resources and can piece together your pipeline or follow published ones.

Thanks Tobias!

Genome assembly for bacteria involves several key steps, from quality control of sequencing reads to the final assembly and validation of the genome. Here are some comprehensive online tutorials that can guide you through the entire process:

- Galaxy Project Tutorial

- This tutorial provides a detailed step-by-step guide on using the Galaxy platform for genome assembly. It covers quality control using FastQC, read trimming, and assembly using the Velvet tool. You will learn how to handle paired-end reads and interpret the results of your assembly [oai_citation:1,Hands-on: An Introduction to Genome Assembly / Assembly](https://training.galaxyproject.org/training-material/topics/assembly/tutorials/general-introduction/tutorial.html).

- EPI2ME Labs Tutorial

- EPI2ME Labs offers a notebook-based tutorial that covers the assembly process using the Flye assembler, particularly suitable for Oxford Nanopore Technologies data. It includes instructions for quality control, assembly, and polishing the genome assembly with tools like Medaka [oai_citation:2,Assembly_Tutorial](https://labs.epi2me.io/notebooks/Assembly_Tutorial.html).

- GitHub - Perfect Bacterial Genome Tutorial

- This GitHub repository by Ryan Wick provides a tutorial focused on achieving a high-quality bacterial genome assembly. It includes scripts and detailed instructions for various stages of the assembly process, including read filtering, assembly, and error correction [oai_citation:3,GitHub - rrwick/Perfect-bacterial-genome-tutorial](https://github.com/rrwick/Perfect-bacterial-genome-tutorial).

-Read the Docs - Bacterial Genomics Tutorial

- This comprehensive tutorial covers everything from installing necessary tools, conducting quality control, performing the assembly, and assessing the assembly quality. It also includes sections on read mapping, variant calling, and genome annotation, making it a great resource for an end-to-end workflow [oai_citation:4,Bacterial Genomics Tutorial](https://bacterial-genomics-intro.readthedocs.io/en/latest/index.html).

These tutorials provide both theoretical background and practical steps, using a variety of tools and platforms to cater to different sequencing technologies and computational environments. By following these guides, you can learn how to perform bacterial genome assembly efficiently and accurately.

Awesome! Thank you for the detailed explanatio!