Results for "Snakemake"
Blogs
List of bioinformatics workflow management tools !
...sp;– Hadoop Oozie-based workflow system focused on genomics data analysis in cloud environments. [ paper-2010 | web ] Snakemake – A workflow manag...1157 days ago
Basic Structure of Snakemake Pipeline Run !
...use Snakefile = name of the snakemake “formula” file Note: The default file that snakemake looks for in the current work...python scripts called by the snakemake formula. config.json = json...execute rules of interest. snakemake --dry-run all VS. s...948 days ago
Bookmarks
snakepipes: A toolkit based on snakemake and python for analysis of NGS data
snakePipes are flexible and powerful workflows built using snakemake that simplify the analysis of NGS data. DNA-mapping* ChIP-seq* RNA-seq* ATAC-seq* scRNA-seq Hi-C...1816 days ago
Snakemake—a scalable bioinformatics workflow engine
Snakemake is a workflow engine that provides a readable Python-based workflow definition language and a powerful execution environment that scales from single-core workstations to compute clusters without modifying the workflow.2086 days ago
- +10 more Bookmarks
Wire posts
Opportunity posts
Postdoctoral scientist genome analytics/ genome bioinformatics (m/f/*)
...petence in working in Unix/Linux environments (shell) Strong programming skills (in particular: Python, R, Perl) Experience with using git and snakemake Fluent English language skil...1554 days ago
Immediate opening for senior and lead bioinformatics engineers at MedGenome
...mysql, #oracle, #mongodb (one or more) Past industry experience >= 2 years or equivalent Other skill sets Knowledge of #nextflow and/or #snakemake Basic knowledge of bioinform...715 days ago
Bio-Scripts
- # list sample names & download URLs. sample_links = {"ERR458493": "https://osf.io/5daup/download", "ERR458494":"https://osf.io/8rvh5/download",...
1530 days ago
Install snakemake and activate on conda
$ conda create -c bioconda -c conda-forge -n snakemake snakemake $ conda activate snakemake1552 days ago
- +1 more Bio-Scripts
Tags
Basic Structure of Snakemake Pipeline Run !
/user/snakemake-demo$ ls config.json data envs scripts slurm-240702.out Snakefile data = mock data for the snakefile to use Snakefile = name of the snakemake “formula” file Note: The default file that snakemake looks for in the current working directory is the Snakefile. ...Tags: Snakemake, Pipeline, Flow, Learn
948 days ago
