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