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jw156605 authored Apr 29, 2022
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## Usage
For usage examples and guided walkthroughs, check the `vignettes` directory of the repo.

* NEW: [Iterative Single-Cell Multi-Omic Integration Using Online iNMF](http://htmlpreview.github.io/?https://github.com/welch-lab/liger/blob/master/vignettes/online_iNMF_tutorial.html)
* NEW: [Integrating unshared features with UINMF](http://htmlpreview.github.io/?https://github.com/welch-lab/liger/blob/master/vignettes/UINMF_vignette.html)
* NEW: [scATAC and scRNA Integration using unshared features (UINMF)](http://htmlpreview.github.io/?https://github.com/welch-lab/liger/blob/master/vignettes/SNAREseq_walkthrough.html)
* NEW: [Cross-species Analysis with UINMF](http://htmlpreview.github.io/?https://github.com/welch-lab/liger/blob/master/vignettes/cross_species_vig.html)
* NEW: [Performing Parameter Selection](http://htmlpreview.github.io/?https://github.com/welch-lab/liger/blob/master/vignettes/Parameter_selection.html)
* NEW: Integrating spatial transcriptomic and transcriptomic datasets using UINMF <a href="https://www.dropbox.com/s/ho62az1kshj59d2/STARmap_dropviz_vig.html?dl=0">Click to Download</a>
* [Iterative Single-Cell Multi-Omic Integration Using Online iNMF](http://htmlpreview.github.io/?https://github.com/welch-lab/liger/blob/master/vignettes/online_iNMF_tutorial.html)
* [Integrating unshared features with UINMF](http://htmlpreview.github.io/?https://github.com/welch-lab/liger/blob/master/vignettes/UINMF_vignette.html)
* [scATAC and scRNA Integration using unshared features (UINMF)](http://htmlpreview.github.io/?https://github.com/welch-lab/liger/blob/master/vignettes/SNAREseq_walkthrough.html)
* [Cross-species Analysis with UINMF](http://htmlpreview.github.io/?https://github.com/welch-lab/liger/blob/master/vignettes/cross_species_vig.html)
* [Performing Parameter Selection](http://htmlpreview.github.io/?https://github.com/welch-lab/liger/blob/master/vignettes/Parameter_selection.html)
* Integrating spatial transcriptomic and transcriptomic datasets using UINMF <a href="https://www.dropbox.com/s/ho62az1kshj59d2/STARmap_dropviz_vig.html?dl=0">Click to Download</a>
* [Integrating Multiple Single-Cell RNA-seq Datasets](http://htmlpreview.github.io/?https://github.com/welch-lab/liger/blob/master/vignettes/Integrating_multi_scRNA_data.html)

* [Jointly Defining Cell Types from scRNA-seq and scATAC-seq](http://htmlpreview.github.io/?https://github.com/welch-lab/liger/blob/master/vignettes/Integrating_scRNA_and_scATAC_data.html)
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