A pipeline for integrative analysis for scTCR- and scRNA-seq data
Project description
Integrative analysis for single-cell RNA sequencing and single-cell TCR sequencing data
immunopipe
is a pipeline based on pipen
framework. It includes a set of processes for scTCR- and scRNA-seq data analysis in R
, python
and bash
. The pipeline is designed to be flexible and configurable.
See a more detailed flowchart here.
Documentaion
https://pwwang.github.io/immunopipe
Proposing more analyses
If you have any suggestions for more analyses, please feel free to open an issue here
Example
https://github.com/pwwang/immunopipe-example
Gallery
There are some datasets with both scRNA-seq and scTCR-seq data available in the publications. The data were reanalyzed using immunopipe
with the configurations provided in each repository, where the results are also available.
Check out the gallery for more details.
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