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# Title: On the plastid genome assembly by subsampling low-quality Oxford Nanopore long-read data

Authors

Affiliations

_Corresponding author_:
Author and mailing address

Email: author@email.edu

Tel.

Fax.

_Running head_:
Plastid genome assembly via long-read subsampling

_Keywords_:
ptGAUL, Flye, Minimap2, TIPPo, PMAT, Oatk, long-read assembly

Word count of the abstract: xxx

Word count of the text: xxxx

\newpage

\newpage

# Abstract {-}

Content of abstract.

\newpage

# Introduction {-}

- `BWA` [@Li2009]
- `Minimap2` [@Li2018]
- `SPAdes` [@Bankevich2012]
- `Flye` [@Kolmogorov2019]
- `FMLRC` [@Wang2018]
- `GeSeq` [@Tillich2017]
- `GetOrganelle` [@Jin2020]
- `ptGAUL` [@Zhou2023]
- `CLAW` [@Phillips2024]
- `PMAT` [@Bi2024]
- `Oatk` [@Zhou2024]
- `TIPPo` [@Xian2025]
- Subsampling [@Efron1987]
- `NextDenovo` [@Hu2024]

# Materials and Methods

(@tbl:benchmark-data-some-2)

(@fig:mainfigure1)

- `Flye` [@Kolmogorov2019]
- `JellyFish` [@Marcais2011]
- `BLAST` [@Altschul1997]
- `SeqKit` [@Shen2016]
- `MAFFT` [@Katoh2013]
- `Bandage` [@Wick2015]
- `Canu` [@Koren2017]
- `NextDenovo` better than `Canu` [@Wick2021]

(@tbl:benchmark-polap-some-0)

(@tbl:benchmark-computer)

# Results

(@tbl:benchmark-polap-some-1)

(Supporting Materials – Plastid genome assemblies using the six pipelines)

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(@tbl:benchmark-polap-some-1)

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- (@tbl:polap-disassemble-Eucalyptus_pauciflora-2)

- (@tbl:polap-disassemble-Eucalyptus_pauciflora-0)

- (@tbl:polap-disassemble-Eucalyptus_pauciflora-3)

# Discussion

content

# Supplementary Materials

content

# Acknowledgements {-}

content

# Author Contributions

content

# Data availability

content

# References {-}

::: {#refs}
:::
