Skip to content
GitLab
Menu
Projects
Groups
Snippets
/
Help
Help
Support
Community forum
Keyboard shortcuts
?
Submit feedback
Contribute to GitLab
Sign in
Toggle navigation
Menu
Open sidebar
Yoann DUFRESNE
linked reads molecule ordering
Commits
83e8d871
Commit
83e8d871
authored
May 12, 2020
by
Yoann Dufresne
Browse files
correct all rule
parent
91643b3c
Changes
1
Show whitespace changes
Inline
Side-by-side
Snakefile_data_simu
View file @
83e8d871
WORKDIR="snake_exec" if "outdir" not in config else config["outdir"]
N=[
10
000] if "n" not in config else config["n"] # Number of molecule to simulate
N=[
5
000] if "n" not in config else config["n"] # Number of molecule to simulate
D=[5] if "d" not in config else config["d"] # Average coverage of each molecule
M=[2] if "m" not in config else config["m"] # Average number of molecule per barcode
M_DEV=[0] if "m_dev" not in config else config["m_dev"] # Std deviation for merging number
iter=1
# snake_experiments/simu_0_bar_n500_d5_m2.gexf
rule all:
input:
expand(f"{WORKDIR}/simu_bar_n{{n}}_d{{d}}_m{{m}}-dev{{md}}.gexf", n=N, m=M, d=D, md=M_DEV)
expand(f"{WORKDIR}/simu_
{{i}}_
bar_n{{n}}_d{{d}}_m{{m}}-dev{{md}}.gexf",
i=list(range(iter)),
n=N, m=M, d=D, md=M_DEV)
rule generate_barcodes_with_dev:
input:
...
...
Write
Preview
Supports
Markdown
0%
Try again
or
attach a new file
.
Attach a file
Cancel
You are about to add
0
people
to the discussion. Proceed with caution.
Finish editing this message first!
Cancel
Please
register
or
sign in
to comment