Added

• #141 - Add OptiType results to MultiQC report

Changed

• #140 - Port pipeline to DSL2
• #140 - Merge nf-core template updates up to 2.6
• #140 - Support for BAM and FASTQ input in the same run
• #140 - Support for DNA and RNA input in the same run

Fixed

See CHANGELOG for more information.

Added

• #91 - Add pipeline parameter schema
• #78 - Add GitHub actions instead of Travis CI
• #73 - Add social preview image

Changed

• #84, #91 - Change input parameters (--input instead of --reads, the parameters --genome and --fasta are deprecated for this pipeline)
• #89, #90 - Update to nf-core template v1.10.2
• #81, #82 - Update to nf-core template v1.9

Fixed

• #79 - Fix mapping index issue #68

See CHANGELOG for more information.

1.1.5 - Patch release - 2019-06-27

• Mini Bugfix Release for MultiQC running in local execution mode

1.1.4 - Patch release - 2019-03-07

• Fix issues with centralized configs
• Fix with pandas, pinning to numpy 1.15.4 instead of 1.16.0

1.1.3 - Patch release - 2019-02-04

• Multiple smaller bugfixes, cleaned up code basis
• #48 - Utilizes RNA/DNA reference genome for remapping correctly

• Fix #37

• Fix #30
• Removed support to pull from Singularity Hub directly, when using the profile singularity. For now, Nextflow will pull the container image from Docker Hub and create the Singularity container on the local host.

• Fix #17
• Fix #13
• Fix #12
• New profile full-trace that can be used for full trace info broadcast with with Nextflow’s weblog feature
• New profile cfc with setups for the core facility cluster at QBiC