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View Process Hh 01

Running Repeat Modeler

Create a Database for RepeatModeler RepeatModeler uses the ABBlast/RMBlast(ncbi) database as input to the repeat modeling pipeline. A utility is provided to assist the user in creating a single database from several types of input structures.

/data/process/Broca/PipeLineGenBrocaEnsamble20kCNSG#
/opt/RepeatModeler/BuildDatabase -name GENOMABROCA_RMOD.fasta Ensamble20K/GENOMABROCA.fasta
Building database GENOMABROCA_RMOD.fasta:
Adding Ensamble20K/GENOMABROCA.fasta to database
Number of sequences (bp) added to database: 68390 ( 173473580 bp )

Run RepeatModeler

/opt/RepeatModeler/RepeatModeler -database GENOMABROCA_RMOD.fasta > run.out