Question: Merging GFF from two different MAKER runs
gravatar for eennadi
2.6 years ago by
eennadi0 wrote:

I am trying to annotate my genome assembly using Maker. I have thousands of contigs, i discovered that few contigs failed during annotation. Since I can't begin a fresh annotation, I selected all the contigs that failed and ran maker on them.

now i want to merge off using gff3_merge

gff3_merge -d /Users/emmannaemeka/Desktop/Gpm/maker/data/mucuna/muc1_genome_snap2.maker.output/muc1_genome_snap2_master_datastore_index.log /Users/emmannaemeka/Desktop/Gpm/maker/data/mucuna/Muc_unfi/sample_1.maker.output/sample_1_master_datastore_index.log gff3_merge -o genome_sample.all.gff

I have two log files 1. muc1_genome_snap2_master_datastore_index.log This is the log file from the first run that had failed contigs 2. sample_1_master_datastore_index.log This is the log file of the sequences in the first run that failed

How can i merge the Gffs to have one functional GFF for maker annotation?

alignment assembly • 1.1k views
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