https://github.com/arjunrajlaboratory/RajLabSeqTools
Tip revision: c8b8c79b2ec9c1bd9eb7ced427bb2aec25f19506 authored by Benjamin Emert on 26 March 2020, 17:37:11 UTC
Updated reorganizeBasespaceFiles.py to better parse samples with same first index (e.g. sample 1 and sample10)
Updated reorganizeBasespaceFiles.py to better parse samples with same first index (e.g. sample 1 and sample10)
Tip revision: c8b8c79
plot.smk
rule plotdiffs:
input: "results/diffexp/{contrast}.diffexp.tsv"
output:
volcano="results/diffexp/{contrast}.diffexp.volcano.pdf",
heatmap="results/diffexp/{contrast}.diffexp.heatmap.pdf"
threads: 1
params:
numdiffgenes=config["params"]["diffgenes"],
logsigmax=config["params"]["log-sig"],
log2foldmin=config["params"]["log2-fold"]
shell:
"Rscript scripts/diff-exp-plots.R {input} {params.numdiffgenes} {params.logsigmax} {params.log2foldmin}"
