# A Single Cell Transcriptomics Based Deconvolution Pipeline for Leukemia

## Documentation for package ‘seAMLess’ version 0.1.1

- DESCRIPTION file.

## Help Pages

cli | Command Line Interface for seAMLess
exampleTCGA | TCGA-LAML bulk RNA-seq data downloaded from GDC
exampleTCGAmeta | TCGA-LAML example data meta file downloaded from GDC
grch38 | Grch38
minRes | A minimal seAMLess result list object
seAMLess | Given the count matrices of bulk-RNA samples, this function deconvolutes each sample into its cell types using a healthy BM reference, and calculates the sample's in vitro resistance to Venetoclax.
ternaryPlot | Given the immune compositions (ICs) of bulk-RNA samples, this function creates a ternary plot similar to ALOT tube from EuroFlow analysis and Figure 1E of our paper.
venoModel | Trained RF model on Venetoclax Resistance
verboseFn | verboseFn
wrangleMat | removes ERCC peaks and duplicated genes