clonotype_analyses

Notice: A python package is currently in active development at branch api

Overview:

• This is a package for the analysis of single-cell TCR/BCR data, incorperating with single-cell RNA clinical metadata
• Functions include:
  • preprocessing
  • ratio of normal and ambigous clonotypes
  • shannon entropy
  • clonotype expansion
  • cdr3 length
  • clonotype diversity on embedding
  • clonotype tracing
• Every analysis will have charts from both matplotlib and plotly

Example dataset: GSE185381

• Link: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE185381
• Used datasets: xxx_vdj_t_filtered_contig_annotations.csv.gz
• Finish plotly and dash
• Viewing results: python3 plotly_html.py