megablast taxonomy assign in blobtools
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11 weeks ago
bs • 0

I made taxonomy assignment file using megablast and ran blobtools create, view, plot. However I couldn't get any taxonmy assignment in the plot, there is only undefined. How can I get bacterial information ?

$blastn -task megablast -db ${nrdb} -query scaffold$i.fa -outfmt '6 qseqid staxids bitscore std' -max_target_seqs 1 -max_hsps 1 -evalue 1e-25 -out scaffold$i_blast.outfmt6 -num_threads 8

$blobtools create -i final.fa -t blast_all_sort.outfmt6 -b aln_illu_sorted.bam -o 231204 blobtools view -i 231204.blobDB.json && blobtools plot -i 231204.blobDB.json
blobtools • 183 views
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