Sniffles
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Description
Sniffles is a structural variation caller using third generation sequencing (PacBio or Oxford Nanopore). It detects all types of SVs (10bp+) using evidence from split-read alignments, high-mismatch regions, and coverage analysis. Please note the current version of Sniffles requires sorted output from BWA-MEM (use -M and -x parameter) or NGM-LR with the optional SAM attributes enabled!
Required Modules
Serial
- gcc/5.2.0
- sniffles
System Variables
- HPC_{{#uppercase:sniffles}}_DIR - installation directory
- HPC_{{#uppercase:sniffles}}_BIN - executable directory
Citation
If you publish research that uses sniffles you have to cite it as follows:
Accurate detection of complex structural variations using single molecule sequencing