Tapestry: validate and edit small eukaryotic genome assemblies with long reads

John William Davey; Seth Jon Davis; Jeremy Charles Mottram; Peter D Ashton

Tapestry: validate and edit small eukaryotic genome assemblies with long reads

John William Davey, Seth Jon Davis, Jeremy Charles Mottram, Peter D Ashton

Biology

Research output: Working paper

Abstract

Summary: Small eukaryotic genome assemblies based on long reads are often close to complete, but
still require validation and editing. Tapestry produces an interactive report which can be used to validate, sort and filter the contigs in a raw genome assembly, taking into account GC content, telomeres,
read depths, contig alignments and read alignments. The report can be shared with collaborators and
included as supplemental material in publications.
Availability: Source code is freely available at https://github.com/johnomics/tapestry. Package is freely
available in Bioconda (https://anaconda.org/bioconda/tapestry).
Contact: john.davey@york.ac.uk

Original language	English
Publication status	Published - 25 Apr 2020

Publication series

Name	bioRxiv
Publisher	Cold Spring Harbor Laboratory Press

Cite this

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title = "Tapestry: validate and edit small eukaryotic genome assemblies with long reads",

abstract = "Summary: Small eukaryotic genome assemblies based on long reads are often close to complete, butstill require validation and editing. Tapestry produces an interactive report which can be used to validate, sort and filter the contigs in a raw genome assembly, taking into account GC content, telomeres,read depths, contig alignments and read alignments. The report can be shared with collaborators andincluded as supplemental material in publications.Availability: Source code is freely available at https://github.com/johnomics/tapestry. Package is freelyavailable in Bioconda (https://anaconda.org/bioconda/tapestry).Contact: john.davey@york.ac.uk",

author = "Davey, {John William} and Davis, {Seth Jon} and Mottram, {Jeremy Charles} and Ashton, {Peter D}",

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N2 - Summary: Small eukaryotic genome assemblies based on long reads are often close to complete, butstill require validation and editing. Tapestry produces an interactive report which can be used to validate, sort and filter the contigs in a raw genome assembly, taking into account GC content, telomeres,read depths, contig alignments and read alignments. The report can be shared with collaborators andincluded as supplemental material in publications.Availability: Source code is freely available at https://github.com/johnomics/tapestry. Package is freelyavailable in Bioconda (https://anaconda.org/bioconda/tapestry).Contact: john.davey@york.ac.uk

AB - Summary: Small eukaryotic genome assemblies based on long reads are often close to complete, butstill require validation and editing. Tapestry produces an interactive report which can be used to validate, sort and filter the contigs in a raw genome assembly, taking into account GC content, telomeres,read depths, contig alignments and read alignments. The report can be shared with collaborators andincluded as supplemental material in publications.Availability: Source code is freely available at https://github.com/johnomics/tapestry. Package is freelyavailable in Bioconda (https://anaconda.org/bioconda/tapestry).Contact: john.davey@york.ac.uk

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BT - Tapestry: validate and edit small eukaryotic genome assemblies with long reads

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