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Importing genome into IGV.

Preparing reference file.

Convert GenBank file to GFF3

Code Block
login1$ module load bioperl
login1$ bp_genbank2gff3.pl input.gbk

Convert Genbank file to Fasta

Code Block
bp_seqconvert --from genbank --to fasta < input.gbk > output.fasta

Index Fasta file.

Code Block
samtools index input.fasta

IGV

Click on File -> Import Genome and you should be presented with the following window.