cellSNP
dance
| cellSNP | dance | |
|---|---|---|
| 2 | 1 | |
| 69 | 323 | |
| - | 4.0% | |
| 0.0 | 8.7 | |
| almost 2 years ago | 8 days ago | |
| Python | Python | |
| Apache License 2.0 | BSD 2-clause "Simplified" License |
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cellSNP
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How to create VCFs for scRNA-Seq data sets
cellSNP is popular and works well.
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Annotating variants in single-cell sequencing data
The authors of vireo have a tool called cellSNP that may be helpful as well.
dance
What are some alternatives?
Vcflib - C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings
Clairvoyante - Clairvoyante: a multi-task convolutional deep neural network for variant calling in Single Molecule Sequencing
COVID-19-RNA-Seq-datasets - A repository for sharing information on available COVID-19 RNA-Seq datasets
mlgauge - A simple library to benchmark the performance of machine learning methods across different datasets.
cellsnp-lite - Efficient genotyping bi-allelic SNPs on single cells
haiku-geometric - A collection of graph neural networks implementations in JAX
mokapot - Fast and flexible semi-supervised learning for peptide detection in Python
alfie - A neural network for alignment-free, kingdom-level classification of eDNA