Antonio Fernandez-Guerra genomewalker

In addition to Harvard's fantastic list, we list some other convenient SLURM commands.

Delay an enqueued job from running

Useful for letting other enqueued jobs run without having to kill/re-run already running jobs. To delay for 7 days:

	## GOAL:
	## re-create a figure similar to Fig. 2 in Wilson et al. (2018),
	## Nature 554: 183-188. Available from:
	## https://www.nature.com/articles/nature25479#s1
	##
	## combines a boxplot (or violin) with the raw data, by splitting each
	## category location in two (box on left, raw data on right)


	# initial set-up ----------------------------------------------------------

	#install UMAP from https://github.com/lmcinnes/umap
	#install.packages("rPython")

	umap <- function(x,n_neighbors=10,n_components=2,min_dist=0.1,metric="euclidean"){
	x <- as.matrix(x)
	colnames(x) <- NULL
	rPython::python.exec( c( "def umap(data,n,d,mdist,metric):",
	"\timport umap" ,
	"\timport numpy",
	"\tembedding = umap.UMAP(n_neighbors=n,n_components=d,min_dist=mdist,metric=metric).fit_transform(data)",