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- Submenu cell_rangercell_ranger
  - count
  - mkref
- Submenu cell_ranger_arccell_ranger_arc
- Submenu cell_ranger_multicell_ranger_multi
  - count
  - make_input_csv
- Submenu RR
  - Submenu biomaRtbiomaRt
    - get_mart
  - Submenu GenomeInfoDBGenomeInfoDB
    - convert_fai_to_seqinfo
  - Submenu GenomicRangesGenomicRanges
    - convert_gtf_to_granges
  - Submenu SeuratSeurat
  - Submenu SignacSignac
    - make_chromatin_assay
- Submenu samtoolssamtools
  - faidx
- Submenu toolstools
  - cat
Submenu workflowsworkflows
- genome_preparation
- Submenu quantificationquantification
- Submenu seuratseurat
  - Submenu prepareprepare
    - cell_ranger
    - cell_ranger_arc
Submenu utilitiesutilities

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