StackOverflow Questions for Tag: snakemake

bioinfonext

Reputation: 119

fastqc and trimming for rnseq data

bioinformaticssnakemakerna-seq

Score: 0

Answers: 0

donkey

Reputation: 1448

Parallelizing a checkpoint calls

pythonsnakemake

Score: 0

Answers: 0

Jack Z

Reputation: 13

Access Python dictionary values by a shell variable within Snakemake shell commands

pythondictionarysnakemake

Score: 0

Answers: 1

Damilola Decarls

Reputation: 29

How best to handle snakemake jobs where program produce the same file names

workflowsnakemake

Score: 0

Answers: 1

Kiffikiffe

Reputation: 93

Snakemake - Check if configfile has a value

pythonconfigsnakemake

Score: 0

Answers: 1

Alessandra Bonilla Salon

Reputation: 13

Snakemake: Rule is not picked up

pythonbashpipelinebioinformaticssnakemake

Score: 1

Answers: 1

Justin Zhang

Reputation: 58

How to include a Rust git repo as a dependency for a snakemake rule?

pythonrustdockerfilesnakemake

Score: 0

Answers: 0

Antje Janosch

Reputation: 1196

Snakemake - files as input/output with timestamp

pythonsnakemake

Score: 0

Answers: 3

Laplace

Reputation: 3

Is there any ways to use wildcards in output?

snakemake

Score: 0

Answers: 1

user249018

Reputation: 557

Snakemake-Target rules may not contain wildcards. Please specify concrete files or a rule without wildcards at the command line

snakemake

Score: 0

Answers: 2

Zhihan

Reputation: 11

slurm_extra not working correctly in set-resources in profile when requesting GPU

slurmsnakemakesnakemake-slurm

Score: 1

Answers: 1

mbarete

Reputation: 449

Snakemake: pass command line arguments to scripts

snakemake

Score: 6

Answers: 4

Kiffikiffe

Reputation: 93

Snakemake expand a string saved in a variable

pythonwildcardsnakemakef-string

Score: 1

Answers: 1

Guillaume Corre

Reputation: 11

snakemake : index config file with wildcard in output of rule

snakemake

Score: 1

Answers: 1

Pipho

Reputation: 1

Error when using expand with Snakemake wildcards to aggregate across samples

wildcardbioinformaticssnakemake

Score: 0

Answers: 1

TiagoRibeiro

Reputation: 1

Grouping jobs locally with Snakemake

snakemake

Score: 0

Answers: 2

DHH

Reputation: 107

Snakemake InputFunctionException TypeError: all() takes no keyword arguments

inputtypeerrorsnakemake

Score: 0

Answers: 0

ma_boi

Reputation: 23

Snakemake: how to implement function using wildcards?

pythonworkflowjobssnakemake

Score: 2

Answers: 1

yoav

Reputation: 1

Error: package or namespace load failed for ‘ggplot2’ in dyn.load(file, DLLpath = DLLpath, ...)

rplotbioinformaticssnakemake

Score: 0

Answers: 0

user28306328

Reputation: 11

Snakemake: mtime rerun trigger forces rerunning previous completed steps when using temporary communal data

snakemake

Score: 1

Answers: 1

PreviousPage 1Next