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Update README.md
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Vect norm
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AntonioDeFalco authored Oct 20, 2023
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Expand Up @@ -29,7 +29,7 @@ A single call (pipelineCNA) allows the execution of the entire analysis of class
- ***count_mtx*** : Count matrix with genes on rows (both Gene Symbol or Ensembl ID are allowed) and cells on columns.
- ***sample*** : Sample name to save results (optional)
- ***par_cores*** : Number of cores to run the pipeline (optional - default 20)
- ***norm_cells*** : Vector of normal cells if the classification is already known and you are only interested in the clonal structure (optional)
- ***norm_cells*** : Vector of confident normal cells if known, to be used as reference (optional)
- ***SUBCLONES*** : Boolean value TRUE if you are interested in analysing the clonal structure and FALSE if you are only interested in the classification of malignant and non-malignant cells (optional - default TRUE)
- ***beta_vega*** : Specifies beta parameter for segmentation, higher beta for more coarse-grained segmentation. (optional - default 0.5)
- ***ClonalCN*** : Get clonal CN profile inference from all tumour cells (optional)
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