Difference between revisions of "SNP-sites"
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==System Variables== | ==System Variables== | ||
* HPC_{{uc:{{#var:app}}}}_DIR - installation directory | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory | ||
Revision as of 18:35, 10 June 2022
Description
We present SNP-sites which can rapidly extract SNPs from a multi-FASTA alignment using modest resources and can output results in multiple formats for downstream analysis. SNPs can be extracted from a 8.3 GB alignment file (1,842 taxa, 22,618 sites) in 267 seconds using 59 MB of RAM and 1 CPU core, making it feasible to run on modest computers. SNP-sites is implemented in C and is available under the open source license GNU GPL version 3.
Environment Modules
Run module spider snp-sites to find out what environment modules are available for this application.
System Variables
- HPC_SNP-SITES_DIR - installation directory
Citation
If you publish research that uses snp-sites you have to cite it as follows: