Taiji_ALTRA

Integrative single cell analysis with Taiji framework, featuring:

• preprocessing of single cell RNA-seq and ATAC-seq
  • prepare Taiji input file
  • prepare Taiji config file
  • run Taiji
• co-embedding of single cell RNA-seq and ATAC-seq
• signature identification with unsupervised Kmeans clustering
• cellular communication network analysis
  • run cellchat for individual
  • ccc combined analysis
• pathogenic gene expression
• binary classification model

Taiji ALTRA workflow

Hypothesis in the paper

Resources

• tutorial and demo:
• talk at ACR meeting: https://acrabstracts.org/abstract/integrated-single-cell-multi-omics-analysis-in-at-risk-for-future-rheumatoid-arthritis-ra-and-early-ra-reveals-shared-transcription-factor-profiles-in-multiple-cell-lineages/

How to cite