How to run Snakemake on an undetermined set of samples?...

How to process spacific pairs of files with Snakemake?...

Snakemake (v8.10.7) fails to locate conda (or micromamba)...

Snakemake: Best practices in separating codebase from raw data and results?...

Snakemake remote rules re-read config file?...

Snakemake issue: wildcard problems when trying to force a rule to be ran after another rule...

Submitted Snakemake Rules Start to Run and Fail Immediately without throwing any Error but Snakemake...

Snakemake taking the whole wildcard list as input...

What's the advantage to specifying a log in the log section of a snakemake rule rather than spec...

Relative Directories in snakefile using workflow.get_source()...

Snakemake: Handle paired reads in a directory...

Resource requests through snakemake --resources vs. cluster submission...

Is there a way to get the config file name specified by --configfile?...

Using checkpoint in snakemake to recover unknown output files with more than one wildcard...

Snakemake rule with one input and several outputs...

set location of .snakemake directory...

Syntax warning for escaped period in triple-quoted shell rule...

Confused by different ways to create key:value dictionary pair for file renaming...

How To Handle Wildcards in Snakemake...

Snakemake: Pipeline to Process Samples with Multiple Input Files...

Python / Snakemake: check condition before executing...

How To Embed Custom Python Functions and Multiple Wildcards in Snakemake Rules...

How does Snakemake repeat benchmark actually work?...

Snakemake takes 90 s on WSL for test snakefile with very simple workload...

How to get snakemake to --use-conda by default?...

How do I use snakemake --cluster-cancel?...

Snakemake unknown number of output files / defining wildcards based on intermediate files...

Snakemake shell strange execution order...

Why is Snakemake introducing whitespaces in my path to submodules?...

Snakemake rule not prducing output in slurm mode...