cellranger-processor

# CellRanger Processor Skill ## Purpose Provide Cell Ranger capabilities for 10X Genomics single-cell data processing including demultiplexing and alignment. ## Capabilities - BCL to FASTQ conversion - Cell barcode demultiplexing - UMI counting - Feature barcode processing - Aggregate sample analysis - Loupe Browser file generation ## Usage Guidelines - Configure sample sheets accurately - Validate cell counts against expectations - Review QC metrics from web summary - Aggregate samples for combined analysis - Generate Loupe files for visualization - Document reference versions ## Dependencies - Cell Ranger - STARsolo ## Process Integration - Single-Cell RNA-seq Analysis (scrnaseq-analysis) - Spatial Transcriptomics Analysis (spatial-transcriptomics)