Cliquesnv
Description
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/