Sniffles¶

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!

Environment Modules¶

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

Environment Variables¶

HPC_SNIFFLES_DIR - installation directory
HPC_SNIFFLES_BIN - executable directory
HPC_SNIFFLES_LIB - library 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

Categories¶

phylogenetics