v0.2.0

Added

• Workflow will now output a JBrowse2 jbrowse.json configuration

Changed

• Output combined reference file to out_dir
• -profile conda is no longer supported, users should use -profile standard (Docker) or -profile singularity instead
• Removed option for specifying report suffix
• Restructured workflow parameter schema

v0.1.9

Added

• Input params and handling for bam and ubam formats

Updated

• Bumped base container to v0.2.0

v0.1.8

Changed

• Fastqingress metadata map

Fixed

• Set out_dir option type to ensure output is written to correct directory on Windows.

Added

• Argument Parser for fastqingress.

v0.1.7

Fixed

• Coloring with less than 3 samples

v0.1.6

Fixed

• run id and barcode output correctly

v0.1.5

Added

• concat_fastq boolean parameter

Changed

• Better help text on cli

v0.1.4

Fixed

• Mosdepth 0 step

Added

• Depth coverage steps parameters

v0.1.3

Fixed

• Cumulative coverage plotting incorrect numbers

v0.1.2

Added

• Cumulative coverage plot

v0.1.1

Changed.

• reference can be either a directory or single file.
• output one merged CSV vs one for each barcode.
• speed up a few steps including mosdepth and report creation.