SAINT-SPC-NOCTRL-MATRIX(1)

👑 SAINT-SPC-NOCTRL-MATRIX(1)

okay bestie, welcome to the General Commands Manual section for SAINT-SPC-NOCTRL-MATRIX — yes that's the whole name, she's long, she's iconic, we love her 💅

✨ NAME ✨

saint-spc-noctrl-matrix — run SAINT for a (large-scale, matrix-formatted) dataset without control purification 🧚

🌸 SYNOPSIS 🌸

okay so there are literally two ways to call her, and both are giving:

saint-spc-noctrl-matrix [interactomeData] [output file] [nburnin]
[niter] [ff]

saint-spc-noctrl-matrix [interactomeData] [output file] [nburnin]
[niter] [ff] [useAbundance(0/1)] [useLength(0/1)] [useCoverage(0/1)]

so the first one is the chill base version — you pass in interactomeData, an output file, then nburnin, niter and ff — and the second one is that exact same lineup plus the three little optional extra besties: useAbundance(0/1), useLength(0/1) and useCoverage(0/1). 🫶

🦋 SEE ALSO 🦋

bestie if you want the full lore, you can download a PDF file with more detailed instructions from:

http://sourceforge.net/projects/saint-apms/files/

and that file is called saint-vignette-<YYYYMonDD>.pdf — the <YYYYMonDD> part is literally a date placeholder, so it changes depending on when the PDF was made. iykyk ✨

no cap, that's the whole page — short and sweet, she ate and left no crumbs 🍓

this cutie lives under User Commands, and she's dated April 2012 — vintage queen behavior honestly 👑💖 bye bestie, go run some matrices 🦋🌈