Filtering raw genomic datasets is essential to avoid chimeric assemblies and to increase the validity of sequence-based biological inference. BlobToolKit extends the BlobTools1/Blobology2 approach to simplify interactive and reproducible filtering.
BlobToolKit Viewer allows browser-based interactive visualisation and filtering of preliminary or published genomic datasets even for highly fragmented assemblies.
Multiple views and data export options dynamically update as filter parameters and selections are modified (Figure 1).
We are running the BlobToolKit pipeline (Figure 2) on all public (INSDC registered) eukaryote genome assemblies and making the results available here.
1 Kumar et al. 2013. Blobology: exploring raw genome data for contaminants, symbionts and parasites using taxon-annotated GC-coverage plots. Frontiers in Genetics, 4:237
2 Laetsch & Blaxter 2017. BlobTools: Interrogation of genome assemblies [version 1; referees: awaiting peer review]. F1000Research, 6:1287 (doi: 10.12688/f1000research.12232.1)
BlobTools2 is a re-implementation of BlobTools designed around a more modular data structure to allow greater flexibility to incorporate additional datatypes. BlobTools2 datasets can be visualised interactively in the BlobToolKit Viewer. To get started with BlobTools2, visit github.com/blobtoolkit/blobtools2 for information on dependencies and to get the code. BlobTools2 datasets are comprised of a number of files representing […]
BlobToolKit is a set of tools to allow interactive exploration, assessment and filtering of genomic datasets. The main tools are BlobTools2, a re-implementation of BobTools to support additional features and The BlobToolKit Viewer, which allows interactive exploration of datasets. This series of blog posts aims to introduce many of the features in BlobToolKit and provide […]
We will be presenting a poster describing BlobToolKit at Genome Science 2018 For more details, either browse this site or take a look at the project code on GitHub.