I am getting an error with Kallisto Bustools wrapper (kb) command to create an index
I am running the command: kb ref -i index.idx -g t2g.txt -f1 cdna.fasta genome.fasta genome.gtf
where genome.fasta= Homo_sapiens.GRCh38.cdna.all.fa.gz and genome.gtf= Homo_sapiens.GRCh38.112.gtf.gz
However, I am getting an error message (what should I do?):
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dsull
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biotrekker •
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biotrekker •
1 answer
Answered here: https://github.com/pachterlab/kb_python/issues/260
"You’re using the wrong fasta (.fa.gz) file — you need to supply the GENOME fasta. Look for the primary assembly on ensembl’s website."
No need to cross-post issues across GitHub+Biostars for kb-python related questions (because I routinely monitor both sites); wait 24-48 hours and if it doesn't get answered on one site, then post on the other.
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