Start the analysis by uploading your data!
or select a dataset from our database
or select a dataset from our database
Instructions
To upload your data and use the single-cell analysis interface of mitoXplorer 3.0,
you need analyzed single cell or single nuclei with UMAP clustering and assigned cell types.
To pre-process these analyzed data for upload to mitoXplorer, use the Python script from this folder.
The script executes as followed :
python3 scXplorer.py -f [h5ad file] -o [organism] -a [annot] -n [output name]
Parameters you need to give:
[organism]: human, mouse, yeast or fly,
[annot] is the name of the column you stored your cell assignement in.
Three files will be written.
The first is the input file for mitoXplorer 3.0 single-cell interface.
The second is the fully analyzed pseudo bulk file of your single-cell data.
You can upload this file using the standard Upload page and, once uploaded, view in the classical Analysis.
The third is the pseudo bulk file with pseudo replicates of your experiment
if you want to analyze your pseudo-bulk data yourself.
For mitochondria-centric single-cell analysis, upload your file and select a cell type.
You can now cluster your chosen cell type using different parameters and start exploring mito-gene expression
in sub-populations of your chosen cell type.
To upload your data and use the single-cell analysis interface of mitoXplorer 3.0,
you need analyzed single cell or single nuclei with UMAP clustering and assigned cell types.
To pre-process these analyzed data for upload to mitoXplorer, use the Python script from this folder.
The script executes as followed :
python3 scXplorer.py -f [h5ad file] -o [organism] -a [annot] -n [output name]
Parameters you need to give:
[organism]: human, mouse, yeast or fly,
[annot] is the name of the column you stored your cell assignement in.
Three files will be written.
The first is the input file for mitoXplorer 3.0 single-cell interface.
The second is the fully analyzed pseudo bulk file of your single-cell data.
You can upload this file using the standard Upload page and, once uploaded, view in the classical Analysis.
The third is the pseudo bulk file with pseudo replicates of your experiment
if you want to analyze your pseudo-bulk data yourself.
For mitochondria-centric single-cell analysis, upload your file and select a cell type.
You can now cluster your chosen cell type using different parameters and start exploring mito-gene expression
in sub-populations of your chosen cell type.