CellPhoneDB主要分成method、plot、query和database4个模块。
安装成功CellPhoneDB后，要先下载CellphoneDB database。下载的地方在cellphoneDB的github里。https://github.com/ventolab/CellphoneDB
练习运行：
在github上下载了test data文件：test_meta.txt,test_counts.txt
在linux命令行输入python3进入python程序，
from cellphonedb.src.core.methods import cpdb_analysis_method
means, deconvoluted = cpdb_analysis_method.call(cpdb_file_path = "/mnt/data/ref/cellphonedb/cellphonedb.zip", meta_file_path = "/mnt/data/ref/cellphonedb/test_meta.txt", counts_file_path = "/mnt/data/ref/cellphonedb/test_counts.txt", counts_data = 'ensembl',output_path = "/mnt/data/ref/a")
注意：
test_counts.txt格式，第一行为：Gene cell1 cell2...
test_meta.txt：
Cell cell_type
d-pos_AAACCTGAGCAGGTCA NKcells_1
d-pos_AAACCTGGTACCGAGA NKcells_0
d-pos_AAACCTGTCGCCATAA NKcells_1
d-pos_AAACGGGTCAGTTGAC Tcells
d-pos_AAAGATGCATTGAGCT NKcells_0
d-pos_AAAGATGTCCAAAGTC NKcells_0
d-pos_AAAGCAAAGAGGACGG Myeloid
d-pos_AAAGCAACACATTCGA NKcells_1
d-pos_AAAGTAGAGAGCCCAA NKcells_0
d-pos_AAAGTAGCAAGCTGAG NKcells_0
counts_data选项，要根据test_counts.txt的基因名为哪种形式来选择ensembl，gene_name ，hgnc_symbol
运行成功后，在输出目录有simple_analysis_means_result_xxx.txt和simple_analysis_deconvoluted_result_xxx.txt文件产生
CellPhoneDB可视化参考：
https://zhuanlan.zhihu.com/p/552055550
