v3.0.0

• CSS calling and demultiplexing with Lima have been removed. Specify one or more post-CCS bam files per sample as input.
• Allow nested inputs for better control over individual jobs.

v2.1.1

• Fix bug in MultiQC pbmarkdup module for long library names.
• Add VCF Metrics to MultiQC report (only used when VariantCalling.dbsnp is specified).

v2.1.0

• Include pbmarkdup in pipeline.
• Upgrade MultiQC_PGx to latest version.
• Update documentation and add conda environment file.

v2.0.2

Dummy release for Zenodo.

v2.0.1

• Move pipeline out of BioWDL.
• Make g.vcf output optional, because generating a g.vcf with DeepVariant is extremely slow. This changes the default behaviour.