BlobToolKit – Interactive Quality Assessment of Genome Assemblies

BlobToolKit – Interactive Quality Assessment of Genome Assemblies

Volume 10 | April 2020 | 1361 | Richard Challis, Edward Richards, Jeena Rajan, Guy Cochran, and Mark Blaxter
BlobToolKit is a software suite designed to help researchers identify and isolate non-target data in draft and publicly available genome assemblies. It uses GC proportion and coverage as major axes for contig or scaffold analysis, overlaying taxonomic assignments to help distinguish sequences from different sources. The tool can be used during the assembly process to filter out contaminants, improving the biological credibility of the final product. BlobToolKit includes a command-line program, Specification for data validation, Viewer for interactive data exploration, and an INSDC-pipeline for automating analyses on publicly available eukaryotic genome assemblies. The Viewer supports various interactive views, including blob plots, cumulative assembly span plots, snail plots, and BUSCO scores, allowing users to assess assembly quality and contamination. The tool has been applied to eukaryotic genome assemblies in the International Nucleotide Sequence Data Collaboration and the European Nucleotide Archive, enhancing the understanding and utility of submitted data.BlobToolKit is a software suite designed to help researchers identify and isolate non-target data in draft and publicly available genome assemblies. It uses GC proportion and coverage as major axes for contig or scaffold analysis, overlaying taxonomic assignments to help distinguish sequences from different sources. The tool can be used during the assembly process to filter out contaminants, improving the biological credibility of the final product. BlobToolKit includes a command-line program, Specification for data validation, Viewer for interactive data exploration, and an INSDC-pipeline for automating analyses on publicly available eukaryotic genome assemblies. The Viewer supports various interactive views, including blob plots, cumulative assembly span plots, snail plots, and BUSCO scores, allowing users to assess assembly quality and contamination. The tool has been applied to eukaryotic genome assemblies in the International Nucleotide Sequence Data Collaboration and the European Nucleotide Archive, enhancing the understanding and utility of submitted data.
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[slides and audio] BlobToolKit %E2%80%93 Interactive Quality Assessment of Genome Assemblies