v1.2.0

Updated

• Diagrams in the README describing AAV genome types.

Fixed

• Rounding issues in genome structures table.
• ITR locations can be specified in a BED file with --transgene_bed.

Added

• Ability to load any number of non-transgene plasmid reference files in a directory with --non_transgene_refs.

v1.1.2

Updated

• Updated Ezcharts to v0.11.2.

v1.1.1

Added

• Publish report missing from v1.0.3.

Fixed

• Automated basecaller detection not finding a basecaller model.

v1.1.0

Changed

• Increase memory allocated to the medaka process.
• Updated Medaka to v1.12.0.

Removed

• Options for specifying Medaka model (--medaka_model and --basecaller_cfg) as this is now inferred automatically from the input data.

Added

• Tagging of BAMs with AV:Z specifying AAV genome type.
• Option --output_genometype_bams to output BAMs by assigned genome type.
• Support for creating IGV JSON config files.
• Automatic detection of basecalling model and medaka model selection.
• --override_basecaller_cfg parameter for cases where automatic basecall model detection fails or users wish to override the automatic choice.

v1.0.3

Fixed

• Datatype inference error during CSV loading.

v1.0.2

Fixed

• Missing data when using reference files containing FASTA header descriptions.

v1.0.1

Fixed

• <img> tags in the docs.

v1.0.0

Added

• Added memory and CPU directives to all processes.

Changed

• Updated docs.

v0.0.2

Fixed

Related protocols link

v0.0.1

Added

First release of wf-aav-qc