Changes in version 2.3.3 (2025-06-18)                  

    o   Gzipped FASTQ outputs to reduce file size

    o   Support adding minimap2 indexed genome (as `genome_mmi`)

    o   Added crew controllers support, steps can now be submitted to slurm etc.

                 Changes in version 2.3.1 (2025-05-22)                  

    o   Refactored pipelines to S4 classes

    o   Included minimap2, oarfish binaries

    o   Added a permutation based DTU method in sc_DTU_analysis

                 Changes in version 2.0.0 (2024-10-29)                  

    o   Added coverage visualization (plot_coverage)

    o   Added find_variant

    o   Reimplement sc_mutations with Rcpp

    o   Added Oarfish as a quantification option

    o   Added plot_demultiplex for visualizing find_barcode results

                        Changes in version 1.8.0                        

    o   Updated find_barcode to use flexiplex and cutadapt

    o   Added blaze for demultiplexing without known barcodes

    o   Added gene quantification

                 Changes in version 1.3.4 (2022-10-26)                  

    o   Added a multi-sample single-cell pipeline (sc_long_multisample_pipeline)

    o   Individual steps are exported as functions

    o   Added a plotting function (sc_annotate)

    o   Added support for using bambu for isoform discovery

                 Changes in version 0.99.0 (2021-04-15)                 

    o   Submitted to Bioconductor