October 2021 PMID 34525345

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer.

Barış Ekim, Bonnie Berger, Rayan Chikhi

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Many discussions highlight the impressive speed and efficiency of genome assembly using the minimizer-space de Bruijn graphs, with one post expressing astonishment that a human genome can be assembled in under 10 minutes using basic equipment. Phrases like 'I'M SORRY WHAT?!' and 'Whaaat?' illustrate the excitement and surprise within the discussions, indicating the potential for this method to transform genetic research.

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There is a strong level of curiosity and relevance demonstrated by the number of posts and their enthusiastic tone.

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While some posts are more informational, a few demonstrate deeper engagement by referencing specific research components.

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Participants perceive the findings as having significant implications for the field of genomics.

Abstract in brief

DNA sequencing technology is advancing by producing longer reads with lower error rates, leading to improvements in genome assembly.
The algorithm mdBG utilizes minimizer-space de Bruijn graphs, achieving significantly faster assembly times and reduced memory usage compared to existing methods, all while maintaining accuracy.
The researchers developed a comprehensive representation of 661,405 bacterial genomes, enabling quick searches for antimicrobial resistance genes, and they anticipate these advancements will be crucial for future genetic studies.

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Advancements in Pangenome Graphs for Genome Assembly

This video offers a hands-on introduction to pangenome graphs, detailing recent advancements in DNA sequencing technologies. Discover how the algorithm mdBG optimizes minimizer-space de Bruijn graphs for rapid and…

Computational Genomics Summer Institute CGSI · Nov 14, 2022 5,316 views

Advancements in Petabase-Scale Genomics and Genome Assembly Techniques

Rayan Chikhi from Institut Pasteur discusses recent progress toward petabase-scale genomics. The talk highlights DNA sequencing technology advancements and the minimizer-space de Bruijn graphs algorithm, which enables…

Computational Genomics Summer Institute CGSI · Oct 28, 2022 320 views

Rayan Chikhi

@RayanChikhi · X

In fact HiFi assemblers started using large k values too: MBG (@MikkoRautiaine3, @tobiasmarschal), our mdBG (https://t.co/o0BZaNd8io), LJA (@AntonBankevich et al), Verkko..

Dec 27, 2022 · 2 likes · 2,827 followers View post →

Nadia Tamayo

@nadiatamayocel · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Dec 11, 2021 · 29 shares · 9 followers View post →

Ilnam Kang

@ilnam_kang · X

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads ... https://t.co/TouYJMD9Gq

Oct 26, 2021 · 235 followers View post →

Kübra KUBAT

@kubatkbra · X

RT @RSGTurkey: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/bXtV0ag…

Oct 20, 2021 · 1 share · 93 followers View post →

ISCB SC RSG Türkiye

@RSGTurkey · X

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/bXtV0agSZ9

Oct 20, 2021 · 5 likes · 1 share · 1,938 followers View post →

Tominaga K. (tomiken)

@pacyc1841 · X

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer: Cell Systems https://t.co/efGj2EPqxQ

Oct 20, 2021 · 867 followers View post →

Long-read metagenomics-Papers

@LR_metagenomics · X

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/7JP7Tg6TGP

Oct 18, 2021 · 370 followers View post →

Gaby Wald

@gaby_wald · X

#sciencedirect #science "Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer" #CellSystems ... https://t.co/cogRCZKVFb

Oct 15, 2021 · 1,006 followers View post →

Lars Podsiadlowski

@LPodsiadlowski · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Oct 3, 2021 · 6 shares · 274 followers View post →

anna-sophie fiston-lavier

@afiston · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Oct 2, 2021 · 6 shares · 585 followers View post →

Saubashya Sur, PhD

@SaubashyaSur · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Oct 2, 2021 · 6 shares · 770 followers View post →

Jingjing Peng

@jingjingpengca1 · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Oct 2, 2021 · 6 shares · 381 followers View post →

Mike Jetten

@msmjetten · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Oct 2, 2021 · 6 shares · 6,722 followers View post →

Milton Tan

@mtanichthys · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Oct 2, 2021 · 6 shares · 5,091 followers View post →

The Assemblathon

@assemblathon · X

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4TkKFeOBg

Oct 2, 2021 · 7 likes · 6 shares · 3,935 followers View post →

MΛRCOS COLEBROOK

@MColebrook · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 24, 2021 · 20 shares · 1,428 followers View post →

MΛRCOS COLEBROOK

@MColebrook · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 24, 2021 · 29 shares · 1,428 followers View post →

Bioinformatics Trends 

@BinfoTrends · X

RT @MColebrook: Minimizer-space de Bruijn #graphs: Whole-#genome #assembly of long #reads in minutes on a personal computer https://t.co/5s…

Sep 23, 2021 · 2 shares · 8,157 followers View post →

CompChemBio Bot

@CompChemBioBot · X

RT @MColebrook: Minimizer-space de Bruijn #graphs: Whole-#genome #assembly of long #reads in minutes on a personal computer https://t.co/5s…

Sep 23, 2021 · 2 shares · 2,761 followers View post →

MΛRCOS COLEBROOK

@MColebrook · X

Minimizer-space de Bruijn #graphs: Whole-#genome #assembly of long #reads in minutes on a personal computer https://t.co/5smk6h0YY7 > @LabCflores @adrmunozb @joluroga #Genomics #Bioinformatics #Bioinformática https://t.co/hgwNU5EuHS

Sep 23, 2021 · 4 likes · 2 shares · 1,428 followers View post →

Krista Fincke

@mad_flyentist · X

"A human genome is assembled in under 10 min using 8 cores and 10 GB RAM." I'M SORRY WHAT?! Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads ... https://t.co/hhObkABmEz

Sep 21, 2021 · 79 followers View post →

Vince Beltran, Ph.D.

@levin_beltran · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 21, 2021 · 29 shares · 11,755 followers View post →

Jorge Espinosa

@jopaes27 · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 21, 2021 · 20 shares · 14 followers View post →

Daniel Ortiz-Barrientos

@dortizba · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 21, 2021 · 29 shares · 2,140 followers View post →

JeanDelmotte

@DrStagiaire · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 21, 2021 · 29 shares · 358 followers View post →

Aldert Zomer

@aldertzomer · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 21, 2021 · 29 shares · 874 followers View post →

Francisco Davila

@danieldavilaale · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 21, 2021 · 29 shares · 185 followers View post →

Juan Montenegro

@jdmontenegroc · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 21, 2021 · 29 shares · 638 followers View post →

John Webster

@dj_of_DNA · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 59 followers View post →

Ritu

@kundu_ritu · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 312 followers View post →

Bob Literman

@BobLiterman · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 415 followers View post →

Acer VanWallendael

@acer_aceae · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 1,110 followers View post →

Alex Harkess

@aeharkess · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 4,799 followers View post →

Cell Systems

@CellSystemsCP · X

RT @jsantoyo: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer. #GenomeAssembly #Lon…

Sep 20, 2021 · 1 share · 7,227 followers View post →

Javier Santoyo

@jsantoyo · X

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer. #GenomeAssembly #LongReads https://t.co/WUQ0kRuPGD @CellSystemsCP

Sep 20, 2021 · 4 likes · 1 share · 6,132 followers View post →

Vega Shah

@dr_alphalyrae · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 18,909 followers View post →

Xavier F.

@xf_grely · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 161 followers View post →

Sagaya

@Sagaya14632659 · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 20, 2021 · 20 shares · 57 followers View post →

Zhixing Feng

@zxfeng_thu · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 19 followers View post →

Alejandro (Alex) Chacon

@achacond · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 1,028 followers View post →

Evan Biederstedt

@EBiederstedt · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 786 followers View post →

Ioannis Xenarios

@ixenario · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 1,355 followers View post →

Glennis Logsdon

@glennis_logsdon · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 1,861 followers View post →

Jose V. Die

@jdieramon · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 875 followers View post →

Kapeel Chougule

@kapeelc61 · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 20, 2021 · 20 shares · 61 followers View post →

Homolog.us

@homolog_us · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 2,172 followers View post →

PacBio

@PacBio · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 44,963 followers View post →

Yulong Niu

@YulongNiu · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 20, 2021 · 20 shares · 71 followers View post →

danilotat

@danilotat · X

RT @infoecho: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https…

Sep 20, 2021 · 29 shares · 72 followers View post →

Marcel Schulz - @marcelschulz@genomic.social

@TheMarcelSchulz · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 20, 2021 · 20 shares · 940 followers View post →

Jason Chin

@infoecho · X

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - ScienceDirect https://t.co/u8Rsum9YlQ

Sep 20, 2021 · 81 likes · 29 shares · 4,430 followers View post →

priya joseph

@ayirpelle · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 20, 2021 · 20 shares · 4,911 followers View post →

aaaa

@ngsstudent · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 20, 2021 · 20 shares · 563 followers View post →

Dr Eoin Ó Cinnéide

@EoinCinneide · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 20, 2021 · 20 shares · 391 followers View post →

Taco Jesse

@TJesse62 · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 20, 2021 · 20 shares · 1,734 followers View post →

Danang Crysnanto

@crdanang · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 20, 2021 · 20 shares · 466 followers View post →

Irina Ćalić Fiebig

@calic_irina · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 20, 2021 · 20 shares · 469 followers View post →

Agnieszka Golicz

@AgnieszkaGolicz · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 20, 2021 · 20 shares · 536 followers View post →

Alexander Wittenberg

@AW_NGS · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 20, 2021 · 20 shares · 5,010 followers View post →

Lei ZHANG

@jameslz · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 19, 2021 · 20 shares · 1,060 followers View post →

Saubashya Sur, PhD

@SaubashyaSur · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 19, 2021 · 20 shares · 770 followers View post →

Dario R. Shaw

@DarioRShaw · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 19, 2021 · 20 shares · 433 followers View post →

Mike Jetten

@msmjetten · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 19, 2021 · 20 shares · 6,722 followers View post →

Milton Tan

@mtanichthys · X

RT @assemblathon: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4Tk…

Sep 19, 2021 · 20 shares · 5,091 followers View post →

The Assemblathon

@assemblathon · X

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/j4TkKFeOBg

Sep 19, 2021 · 41 likes · 20 shares · 3,935 followers View post →

Sadik Muzemil

@sadikmz · X

RT @I_CRY2: In case you wanted to assemble a genome on your laptop. Whaaat? https://t.co/MPMG0O7oFK https://t.co/qYpuaC4ZEX

Sep 18, 2021 · 5 shares · 580 followers View post →

Adawiah Zainal

@ruruadra · X

RT @I_CRY2: In case you wanted to assemble a genome on your laptop. Whaaat? https://t.co/MPMG0O7oFK https://t.co/qYpuaC4ZEX

Sep 18, 2021 · 5 shares · 230 followers View post →

Irene Julca

@IreneJulca · X

RT @I_CRY2: In case you wanted to assemble a genome on your laptop. Whaaat? https://t.co/MPMG0O7oFK https://t.co/qYpuaC4ZEX

Sep 17, 2021 · 5 shares · 337 followers View post →

Ilnam Kang

@ilnam_kang · X

RT @metagenomic_lit: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/z…

Sep 17, 2021 · 8 shares · 235 followers View post →

Jordan Russell, Ph.D

@russelltyjor · X

RT @metagenomic_lit: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/z…

Sep 16, 2021 · 8 shares · 122 followers View post →

সোহিনী গুহ I Sohini Guha

@Guha2Sohini · X

RT @I_CRY2: In case you wanted to assemble a genome on your laptop. Whaaat? https://t.co/MPMG0O7oFK https://t.co/qYpuaC4ZEX

Sep 16, 2021 · 5 shares · 135 followers View post →

Jesse Elder

@jelder099 · X

RT @metagenomic_lit: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/z…

Sep 16, 2021 · 8 shares · 29 followers View post →

Magdalena J Mayr

@MagdiJMayr · X

RT @metagenomic_lit: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/z…

Sep 16, 2021 · 8 shares · 384 followers View post →

Oliver Artz

@I_CRY2 · X

In case you wanted to assemble a genome on your laptop. Whaaat? https://t.co/MPMG0O7oFK https://t.co/qYpuaC4ZEX

Sep 16, 2021 · 13 likes · 5 shares · 1,137 followers View post →

Dataemia

@Dataemia · X

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - https://t.co/eYKbgdMWtp

Sep 16, 2021 · 966 followers View post →

MasMaz

@MasMazCom · X

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer - https://t.co/JrxUgIEdoo

Sep 16, 2021 · 169 followers View post →

Shaman Narayanasamy

@shaman_ns · X

RT @metagenomic_lit: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/z…

Sep 16, 2021 · 8 shares · 212 followers View post →

Mike Jetten

@msmjetten · X

RT @metagenomic_lit: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/z…

Sep 16, 2021 · 8 shares · 6,722 followers View post →

Metagenomics Papers

@metagenomic_lit · X

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/zoM0zjGfLY

Sep 16, 2021 · 12 likes · 8 shares · 3,700 followers View post →

pangenome_papers

@pangenomepapers · X

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer https://t.co/5hUDDMOYy1 https://t.co/ohFyd0UbvE

Sep 16, 2021 · 2 likes · 420 followers View post →

Amit Rupani

@IAnalyzeGenomes · X

RT @kt_pickard: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer OA paper: https://…

Sep 15, 2021 · 3 shares · 362 followers View post →

Bioinformatics Trends 

@BinfoTrends · X

RT @kt_pickard: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer OA paper: https://…

Sep 15, 2021 · 3 shares · 8,157 followers View post →

CompChemBio Bot

@CompChemBioBot · X

RT @kt_pickard: Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer OA paper: https://…

Sep 15, 2021 · 3 shares · 2,761 followers View post →

KT Pickard

@kt_pickard · X

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer OA paper: https://t.co/J06yOa6VCR #Bioinformatics #HiFi Backgrounder: https://t.co/KNVq4jrWPF

Sep 15, 2021 · 3 likes · 3 shares · 637 followers View post →

Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer.

Mentions per month

Where it's discussed

What people are saying

Abstract in brief

Top posts

All mentions

Advancements in Pangenome Graphs for Genome Assembly

Advancements in Petabase-Scale Genomics and Genome Assembly Techniques