SAMap

1. SAMap

https://elifesciences.org/articles/66747#abstract

2. 实验室官网

https://wanglab.stanford.edu/tools

3. GitHub

https://github.com/atarashansky/SAMap

4. 官方教程

https://github.com/atarashansky/SAMap/blob/main/SAMap_vignette.ipynb

5. 使用

5.1 blast

使用 map_genes.sh

Usage: map_genes.sh [--tr1] [--t1] [--n1] [--tr2] [--t2] [--n2]
    [--tr1]: path to transcriptome/proteome 1
    [--t1]: is 1 a transcriptome [nucl] or proteome [prot]
    [--n1]: two character identifier of 1
    [--tr2]: path to transcriptome/proteome 2
    [--t2]: is 2 a transcriptome [nucl] or proteome [prot]
    [--n2]: two character identifier of 2

使用示例：

./map_genes.sh --tr1 Dmel-protein.fasta --t1 prot --n1 Dm --tr2 Amel-protein.fasta --t2 prot --n2 Am

5. 使用文章一

Li J, Wang J, Zhang P, et al. Deep learning of cross-species single-cell landscapes identifies conserved regulatory programs underlying cell types. Nat Genet. 2022;54(11):1711-1720. doi:10.1038/s41588-022-01197-7
10.1038/s41588-022-01197-7

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