An accurate and robust imputation method scImpute for single-cell RNA-seq data
http://jsb.ucla.edu/sites/default/files/publications/NC_scImpute.pdf
18年UCLA刚发在NC上的一篇technology的文章,软件试过有用但是在本人数据上并没有明显的优越性,有待更多考证。
不过原理需求甚解以便效尤后续之分析。
the workflow in the imputation step of scImpute method. scImpute first learns each gene’s dropout probability in each cell by fitting a mixture model. Next, scImpute imputes the (highly probable) dropout values in cell j (gene set Aj ) by borrowing information of the same gene in other similar cells, which are selected based on gene set Bj (not severely affected by dropout events).
selecting matrix 的图示原理:
与其他软件的比较,空白对照和平行对照:scimpute、MAGIC、SAVER
one more dimension reduction plot:
clustering:
效果先摆上来,确实很不错。那么具体算法和统计模型是如何架构的呢:
step by step Factorization:
establishing the normalized count matrix</