2.1.0

• Cell-calling is done for each sub-library separately, improving performance for large runs
• Changes to CellFinder to align more closely with EmptyDrops
  • Cell-barcodes far below the median unique transcript count (medianFraction) are never called cells
• Beads exposed to a large ambient RNA signal are filtered by default
• Ultima .cram input supported without fixed filename pattern
• Short reads after adapter and Poly-A trimming are not longer reported in the library QC reports
  • These reads are included in "Total Sample Reads" in the sample reports
• Saturation is always calculated on all transcriptome reads
  • Unique and multimappers and both genomes for barnyard samples
• Barcode naming changes
  • The barcode from the RT plate is called RT and no longer pbc barcode
  • Bead barcode blocks are 01-96, instead of 1A-12H
• The workflow now checks minimal compute resource requirements after start-up
• Updated example samplesheet.csv files
  • The index orientation needed for NextSeq 2000 and NovaSeq X is now the default, rather than _revComp

2.0.1

• Remove trimming of cDNA (RNA) read to max 82bp length
• Make QuantumScale RNA the default library type

v1.6.3

• Fix remote URL in sample and library QC reports (HTML)

v1.6.2

• Fix channel dump error in inputReads.nf that was triggered by Nextflow 24.10

v1.6.1

v1.6.1

v1.6.0

Add support for ScalePlex library analysis and assignment in tandem with RNA analysis, enabled by the --scaleplex parameter

v1.4.0

ScaleBio Seq Suite: RNA Workflow version 1.4 adds support for the RNA v1.1 kits and extended throughput plates.
Additional changes in changelog.md

v1.3.3

ScaleBio Seq Suite: RNA Workflow version 1.3.3