Cliquesnv

Description

cliquesnv website  

Scalable reconstruction of intra-host viral populations from NGS reads

Environment Modules

Run module spider cliquesnv to find out what environment modules are available for this application.

System Variables

• HPC_CLIQUESNV_DIR - installation directory
• HPC_CLIQUESNV_BIN - executable directory

Additional Information

For usage:

cliquesnv --help

cliquesnv -m [method] [options]

Available methods: snv-pacbio, snv-illumina, snv-pacbio-vc, snv-illumina-vc

Citation

If you publish research that uses cliquesnv you have to cite it as follows:

Knyazev S, Tsyvina V, Shankar A, Melnyk A, Artyomenko A, Malygina T, Porozov YB, Campbell EM, Switzer WM, Skums P, Mangul S, Zelikovsky A. Accurate assembly of minority viral haplotypes from next-generation sequencing through efficient noise reduction. Nucleic Acids Res. 2021 Jul 2:gkab576. doi: 10.1093/nar/gkab576. Epub ahead of print. PMID: 34214168.

https://pubmed.ncbi.nlm.nih.gov/34214168/