docs/README.md

In satijalab/seurat-wrappers: Community-Provided Methods and Extensions for the Seurat Object

SeuratWrappers Vignettes

This directory contains individual method vignettes for each method provided by SeuratWrappers. Generally speaking, each vignette will have three files. Each file has the same content, just formatted and rendered differently: - *.Rmd: these are the source Rmarkdown files used to generate the other files. Viewing them will show only the raw code - *.html: these are knitted HTML files. Viewing them on GitHub will show only the raw HTML code. To view rendered HTML, checkout our vignettes page or use the wonderful GitHub HTML Preview service; links to rendered HTMLs are also provided below - *.md: these are knited Markdown files. Viewing them will show the rendered Markdown content, useful for browsing here on GitHub

Method Listing

| Package | Vignette | Reference | Source | | ------- | -------- | --------- | ------ | | Conos | Integration of datasets using Conos | Barkas et al, Nature Methods 2019 | https://github.com/hms-dbmi/conos | | LIGER | Integrating Seurat objects using LIGER | Welch et al, Cell 2019 | https://github.com/MacoskoLab/liger | | fastMNN | Running fastMNN on Seurat Objects | Nature Biotechnology 2018 | https://bioconductor.org/packages/release/bioc/html/scran.html | | Harmony | Integration of datasets using Harmony | Korsunsky et al, bioRxiv 2018 | https://github.com/immunogenomics/harmony | | ALRA | Zero-preserving imputation with ALRA | Linderman et al, bioRxiv 2018 | https://github.com/KlugerLab/ALRA | | Velocity | Estimating RNA Velocity using Seurat | La Manno et al, Nature 2018 | https://velocyto.org |

satijalab/seurat-wrappers documentation built on April 10, 2024, 3:25 p.m.