The present and future of de novo whole-genome assembly
… for only the hybrid assembly pipeline that connects … assembly pipeline that closes the gaps
between contigs of short NGS reads. The existing hybrid/long-read-only assembly pipelines …
between contigs of short NGS reads. The existing hybrid/long-read-only assembly pipelines …
Fast and accurate de novo genome assembly from long uncorrected reads
… With the increasing interest in the development of better third-generation assembly
pipelines, we believe that Racon can serve as useful plug-in consensus module that enables …
pipelines, we believe that Racon can serve as useful plug-in consensus module that enables …
[HTML][HTML] GAEP: a comprehensive genome assembly evaluating pipeline
Y Zhang, HW Lu, J Ruan - Journal of Genetics and Genomics, 2023 - Elsevier
… In this study, we developed a systematic genome assembly evaluating pipeline called
GAEP, which consists of several carefully selected modules that provide a reference-free and …
GAEP, which consists of several carefully selected modules that provide a reference-free and …
[HTML][HTML] MitoHiFi: a python pipeline for mitochondrial genome assembly from PacBio high fidelity reads
M Uliano-Silva, JGRN Ferreira, K Krasheninnikova… - BMC …, 2023 - Springer
… have revolutionised genome assembly leading … genome is sequenced alongside the nuclear
genome often at very high coverage. A dedicated tool for mitochondrial genome assembly …
genome often at very high coverage. A dedicated tool for mitochondrial genome assembly …
VirAmp: a galaxy-based viral genome assembly pipeline
… This demonstrates the need for tools that provide customizable pipelines that life scientists
… of the assembly. In this paper we present VirAmp, a virus assembly pipeline designed to …
… of the assembly. In this paper we present VirAmp, a virus assembly pipeline designed to …
Common workflow language (CWL)-based software pipeline for de novo genome assembly from long- and short-read data
… we established an entirely novel, automated genome assembly pipeline [57] that integrates
… This pipeline achieves repeatable and reproducible high-quality genome assemblies for …
… This pipeline achieves repeatable and reproducible high-quality genome assemblies for …
[HTML][HTML] An integrated pipeline for de novo assembly of microbial genomes
… genome assembly pipeline that incorporates methods for data cleaning, error correction,
contig assembly, and scaffolding together with a new algorithm for assembly quality control. …
contig assembly, and scaffolding together with a new algorithm for assembly quality control. …
Herbarium genomics: plastome sequence assembly from a range of herbarium specimens using an Iterative Organelle Genome Assembly pipeline
… genome skimming and an automated assembly pipeline, Iterative Organelle Genome Assembly,
… Assembly (IOGA) pipeline which was designed and constructed for this project. IOGA is …
… Assembly (IOGA) pipeline which was designed and constructed for this project. IOGA is …
Significantly improving the quality of genome assemblies through curation
K Howe, W Chow, J Collins, S Pelan, DL Pointon… - …, 2021 - academic.oup.com
… , assembly algorithms and pipelines, no automated approach has so far reliably generated
near error-free genome assemblies … and fully automated pipelines, assembly evaluation and …
near error-free genome assemblies … and fully automated pipelines, assembly evaluation and …
The draft nuclear genome assembly of Eucalyptus pauciflora: a pipeline for comparing de novo assemblies
… genome assembly. BUSCO scores provide a very useful measure of genome assembly …
), and in principle we should prefer genome assemblies with BUSCO scores closer to 100%…
), and in principle we should prefer genome assemblies with BUSCO scores closer to 100%…