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This new release includes structural modifications to the main.nf script. We now use tuples to pair collapsed BAM and RC map files (.tsv) to ensure an accurate expansion of BAM files after multimapping assignment.
We have also updated the 03.plot_fn.R R script to adjust plot size dynamically, based on the number of replicates and the selected range of read length.
In addition, we introduce the expand_unmapped parameter to also allow the expansion of unmapped FASTQ files.