BCdatabaser v1.1.2

The Reference DB Creator - BCdatabaser - is a pipeline to create reference databases for arbitrary markers and taxonomic groups from NCBI data. It can optionally be used to trim and orient the sequences and train taxonomic classifiers.

This web interface exposes a subset of the parameters of the command line version. All databases built here are automatically pushed to zenodo and publicly listed. If you want to create large numbers of databases, private databases or use more custom parameters please use the command line version instead. Taxonomic range and taxa list are per default checked against NCBI Taxonomy names, any unknown names will cause an error. Aditionally, the sequences per taxon are limited to 9 and the sequence length range is set to 100-2000bp. This corresponds to the command line parameters: --check-tax-names --sequences-per-taxon=9 --sequence-length-filter=100:2000

If you use BCdatabaser please cite our publication in addition to the specific dataset. We do not store or use any personal data. Only meta-data of the jobs is stored in the database, everything else is submitted to zenodo and then deleted locally. If you have any questions or requests please do not hesitate to open an issue.

Please be aware that the runtime of your job depends on the taxonomic range and the search term. Due to limited computational resources only one job is executed at a time, all other jobs are queued (see table at the bottom).

Some information how to use the pipeline

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There are currently x jobs running and y pending.