PIASO: Precise Integrative Analysis of Single-cell Omics#

Current available functionalities include:

  • perform dimensionality reduction with GDR

  • integration of scRNA-seq datasets with GDR

  • integration of scRNA-seq data and MERFISH/Xenium data with GDR

  • normalization of scRNA-seq data with INFOG

  • selection of highly-variable genes in scRNA-seq data with INFOG

  • a novel gene set scoring method

  • run clustering on selected cluster(s)

  • side-by-side cell embedding plots, e.g., split by Conditions

  • stacked violin plots for multiple features, including genes and cell metrics

Upcoming functionalities:

  • preprocessing of scATAC-seq datasets

  • integration of scRNA-seq and scATAC-seq datasets (not relying on gene activities)

  • inference of cell type-specific gene regulatory networks

and others

Citation#

If PIASO is useful for your research, please consider citing Wu et al., Pyramidal neurons proportionately alter the identity and survival of specific cortical interneuron subtypes, bioRxiv (2024).

Indices and tables#