CellPhoneDB Tutorial
Recommended Post : 【Bioinformatics】 Ligand-Receptor Interaction Analysis
1. Installation
2. References
1. Installation
⑴ Preparing the Linux Environment or anaconda3 Installation
⑵ Input Files
① cellphonedb_meta.txt
② cellphonedb_count.txt
⑶ Example Code
① If “–counts-data=gene_name” is missing, the error message “All counts filtered: Are you using human data?” will be displayed.
⑷ Generated Files
① deconvoluted.txt
② means.txt
③ pvalues.txt
④ values_means.txt
⑤ significant_means.txt
2. References
⑴ https://pubmed.ncbi.nlm.nih.gov/32103204/
CellPhoneDB: inferring cell-cell communication from combined expression of multi-subunit ligand-receptor complexes - PubMed Cell-cell communication mediated by ligand-receptor complexes is critical to coordinating diverse biological processes, such as development, differentiation, and inflammation. To investigate how the context-dependent crosstalk of different cell types enables… pubmed.ncbi.nlm.nih.gov
⑵ https://www.cellphonedb.org/documentation
CellPhoneDB - Welcome Database design and analysis method Database input files CellPhoneDB stores ligand-receptor interactions as well as other properties of the interacting partners, including their subunit architecture and gene and protein identifiers. In order to create the… www.cellphonedb.org
⑶ https://github.com/Teichlab/cellphonedb
GitHub - Teichlab/cellphonedb Contribute to Teichlab/cellphonedb development by creating an account on GitHub. github.com
Date of Input: 2021-04-13 20:40