CellPhoneDB
- Specify Input datapath
- database,metadata,counts,tf,..
- cpdb_statistical_analysis_method.calla
- output ['deconvoluted', 'deconvoluted_percents', 'means', 'pvalues', 'significant_means', 'CellSign_active_interactions', 'CellSign_active_interactions_deconvoluted', 'interaction_scores']
python
cpdb_file_path = 'db/v5/cellphonedb.zip' # ① 数据库（必填）
meta_file_path = 'data/metadata.tsv' # ② 元数据（必填）
counts_file_path = 'data/normalised_log_counts.h5ad' # ③ 表达矩阵（必填）
microenvs_file_path = 'data/microenvironment.tsv' # ④ 微环境/niche（可选，空间相关）
active_tf_path = 'data/active_TFs.tsv' # ⑤ 活跃转录因子（可选，CellSign用）
out_path = 'results/method2_withScore' # ⑥ 输出目录