MOSAIK
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Description
MOSAIK is a reference-guided assembler comprising of two main modular programs:
MosaikBuild MosaikAligner MosaikBuild converts various sequence formats into Mosaik’s native read format. MosaikAligner pairwise aligns each read to a specified series of reference sequences and produces BAMs as outputs.
At this time, the workflow consists of supplying sequences in FASTA, FASTQ, Illumina Bustard & Gerald, or SRF file formats and producing results in the BAM format.
Environment Modules
Run module spider mosaik to find out what environment modules are available for this application.
System Variables
- HPC_{{#uppercase:mosaik}}_DIR - installation directory
- HPC_{{#uppercase:mosaik}}_BIN - executable directory
- HPC_{{#uppercase:mosaik}}_NET - network file directory
- MOSAIK_TMP - directory for temporary files
Citation
If you publish research that uses mosaik you have to cite it as follows:
http://dx.plos.org/10.1371/journal.pone.0090581