Skip to content

Commit

Permalink
add reviewer suggestions in #111
Browse files Browse the repository at this point in the history
  • Loading branch information
Daniel-VM committed Feb 19, 2024
1 parent 2387547 commit 0aaeebe
Showing 1 changed file with 3 additions and 1 deletion.
4 changes: 3 additions & 1 deletion README.md
Original file line number Diff line number Diff line change
Expand Up @@ -4,6 +4,7 @@
<img alt="nf-core/bacass" src="docs/images/nf-core-bacass_logo_light.png">
</picture>
</h1>

[![GitHub Actions CI Status](https://github.com/nf-core/bacass/workflows/nf-core%20CI/badge.svg)](https://github.com/nf-core/bacass/actions?query=workflow%3A%22nf-core+CI%22)
[![GitHub Actions Linting Status](https://github.com/nf-core/bacass/workflows/nf-core%20linting/badge.svg)](https://github.com/nf-core/bacass/actions?query=workflow%3A%22nf-core+linting%22)
[![AWS CI](https://img.shields.io/badge/CI%20tests-full%20size-FF9900?labelColor=000000&logo=Amazon%20AWS)](https://nf-co.re/bacass/results)
Expand Down Expand Up @@ -36,7 +37,8 @@ This pipeline is primarily for bacterial assembly of next-generation sequencing
For users that only have Nanopore data, the pipeline quality trims these using [PoreChop](https://github.com/rrwick/Porechop) and assesses basic sequencing QC utilizing [NanoPlot](https://github.com/wdecoster/NanoPlot) and [PycoQC](https://github.com/a-slide/pycoQC).
The pipeline can then perform long read assembly utilizing [Unicycler](https://github.com/rrwick/Unicycler), [Miniasm](https://github.com/lh3/miniasm) in combination with [Racon](https://github.com/isovic/racon), [Canu](https://github.com/marbl/canu) or [Flye](https://github.com/fenderglass/Flye) by using the [Dragonflye](https://github.com/rpetit3/dragonflye)(\*) pipeline. Long reads assembly can be polished using [Medaka](https://github.com/nanoporetech/medaka) or [NanoPolish](https://github.com/jts/nanopolish) with Fast5 files.

> **\*Note**: Dragonflye is a comprehensive pipeline designed for genome assembly of Oxford Nanopore Reads. It facilitates the utilization of Flye (default), Miniasm, and Raven assemblers, along with Racon(default) and Medaka polishers. For more information, visit the [Dragonflye GitHub](https://github.com/rpetit3/dragonflye) repository.
> [!NOTE]
> Dragonflye is a comprehensive pipeline designed for genome assembly of Oxford Nanopore Reads. It facilitates the utilization of Flye (default), Miniasm, and Raven assemblers, along with Racon(default) and Medaka polishers. For more information, visit the [Dragonflye GitHub](https://github.com/rpetit3/dragonflye) repository.
### Hybrid Assembly

Expand Down

0 comments on commit 0aaeebe

Please sign in to comment.