Necklace¶

Description¶

In species where the reference genome or annotation is incomplete, RNA-Seq analyses can benefit from performing a genome-guided and de novo assembly, in addition to using the reference annotation. Necklace is a software pipeline to run genome-guided and de novo assembly and combine the resulting transcriptomes with reference genome annotations.

Environment Modules¶

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

Environment Variables¶

HPC_NECKLACE_DIR - installation directory
HPC_NECKLACE_BIN - executable directory
HPC_NECKLACE_CONF - necklace.groovy file

Categories¶

biology, phylogenetics