Robust SNP-based demultiplexing tool
Project description
dropbucket
Robust SNP-based demultiplexing tool designed to accurately assign cells to donors in pooled scRNA-seq datasets, even under extremely unbalanced pooling condition and samples with genetically similar genotypes.
Usage
python dropbucket_pipeline.py \
--mtx_path dir/mtx_path \
--cellbarcode_path dir/barcodes.tsv \
--k 8 \
--output_dir results
Requirements (Python)
- Python >= 3.9
- numpy
- pandas
- scipy
- scikit-learn
Requirements (External tools)
- freebayes
- vartrix
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