---
fastadirs: an array of fasta directories, in our implementation, each directory consists of around 100 fasta pairs
+
batchsize: an integer determining the batch size when running lighting-import step, e.g., for batchsize 12, we run lightning-import for 12 fasta directories together as a batch, the resulting libraries then get merged by lightning-slice
+
matchgenome: a string pattern used for obtaining a subset of the cohort, e.g, matchgenome "ADNI|WCAP" runs tiling for all samples with "ADNI" or "WCAP" in their name, matchgenome "" runs for the entire cohort
+
trainingsetsize: a float between 0 and 1 to determine the training set size
projects / lightning.git / blobdiff