dada2HPCPipe-package: dada2HPCPipe: DADA2 HPC Workflow Wrapper

In erictleung/dada2HPCPipe: DADA2 HPC Workflow Wrapper

Description

16S rRNA microbiome data analysis workflow using DADA2 and R on a high performance cluster using Slurm. The functions here are wrappers around the DADA2 functions in order to more efficiently use on a cluster. The functions break down the workflow into parts based on stopping points that require a user's input for the next steps.

Author(s)

Maintainer: Eric Leung [e-mail]

References

Callahan, Benjamin J., et al. "DADA2: high-resolution sample inference from Illumina amplicon data." Nature Methods 13.7 (2016): 581-583. http://dx.doi.org/10.1038/nmeth.3869

DADA2 GitHub page https://github.com/benjjneb/dada2

Callahan, Ben J., et al. "Bioconductor workflow for microbiome data analysis: from raw reads to community analyses." F1000Research 5 (2016). http://dx.doi.org/10.12688/f1000research.8986.2

DADA2 Homepage http://benjjneb.github.io/dada2/

See Also

Useful links:

• https://github.com/erictleung/dada2HPCPipe

• Report bugs at https://github.com/erictleung/dada2HPCPipe/issues

erictleung/dada2HPCPipe documentation built on May 10, 2019, 1:19 p.m.