Codeplot
Introduction
Script
Input
Output
qc
Introduction

this workflow load files and calculate quality control metrics by scanpy.pp.calculate_qc_metrics

Script
Input
Task nameAttribute nameTypeDescription
*
      main.qc
    filetypeString
      --
    
*
      main
    project_nameString
      project name
    
*
      main
    infileFile
      input matrix file
    
*
      main.qc
    per_mtInt
      Maximum percentage  of mitochondria expressed required for a cell to pass filtering
    
*
      main.qc
    min_geneInt
      Minimum number of genes expressed required for a cell to pass filtering.
    
*
      main.qc
    min_cellInt
      Minimum number of cells expressed required for a gene to pass filtering.
    
*
      main.qc
    memoryString
      Number of memory running tasksnotice:1. The value range is 0.25-32 cores, in addition, 48 cores and 64 cores can be selected, and the CPU must be an integer multiple of 0.25 cores; 2. The memory value range is 1GB-512GB, and the memory must be an integer multiple of 1GB. 3. The CPU / memory ratio must be between 1:2 and 1:8
    
*
      main.qc
    genesInt
      Maximum number of genes expressed required for a cell to pass filtering.
    
*
      main.qc
    dockerString
      --
    
*
      main.qc
    cpuString
      Number of CPU running tasks.notice:1. The value range is 0.25-32 cores, in addition, 48 cores and 64 cores can be selected, and the CPU must be an integer multiple of 0.25 cores; 2. The memory value range is 1GB-512GB, and the memory must be an integer multiple of 1GB. 3. The CPU / memory ratio must be between 1:2 and 1:8
    
Output
Task nameAttribute nameTypeDescription
*
      main
    pngfileArray[File]
      Return the output file to the column name of the corresponding table by this.xxx
    
*
      main
    h5adfileFile
      Return the output file to the column name of the corresponding table by this.xxx