singlecellexperiment

There are 0 repository under singlecellexperiment topic.

• stemangiola / CuratedAtlasQueryR

  Tidy R query API for the harmonised and curated CELLxGENE single-cell atlas.

  single-celltidyversedatabasehuman-cell-atlasduckdbhdf5singlecellexperiment
  Language:R 73

• milescsmith / ReductionWrappers

  R wrappers to connect Python dimensional reduction tools and single cell data objects (Seurat, SingleCellExperiment, etc...)

  singlecellexperimentseuratwrappersinglecellexperiment-objectsbioinformaticspagaumapphatetsneopentsneforceatlas2force-directed-graphspythonwrapperspacmapdimensionality-reductiondimension-reductiondimensional-reduction
  Language:R 35

• stemangiola / tidySingleCellExperiment

  Brings SingleCellExperiment objects to the tidyverse

  ggplot2singlecellexperimenttidyversetibblebioconductordplyrtidyrsingle-cell-rna-seqplotlysingle-cell-sequencing
  Language:R 34

• BiocPy / SingleCellExperiment

  Container class for single-cell experiments

  singlecellexperiment
  Language:Python 2
• snATAC-and-scRNA-seq-plots

  CompBioLevings / snATAC-and-scRNA-seq-plots

  This repository consists of two **Jupyter Notebooks** created to document a comparison of a mouse brain snATAC-seq (single nuclei assay for transposase accessible chromatin with sequencing) data set from http://catlas.org/mousebrain/ with a scRNA-seq (single cell RNA sequencing) data set from the Linnarsson lab's http://mousebrain.org/. Specifically, in this code, I identify differences in neuronal vs other cell types in the mouse brain based on chromatin accessibility (snATAC-seq signal of a specific region aggregated by cell type/cluster) and gene expression (scRNA-seq signal aggregated by cell type/cluster).

  atacseqpythonrnaseqsinglecellexperiment
  Language:Jupyter Notebook 1