RNA-seq STAR genome mapping

Question

[waaaaaa]

I'm working on the genome index file using STAR tool. Following is my code:

STAR --runMode genomeGenerate --genomeDir /GenomeDirectory --genomeFastaFiles D_genome.fasta --sjdbGTFfile D_assembl.gtf

However, it keeps popping out the error message as follow:

star: Bad Option: --runMode.

Usage: star cmd [options] [-find] file1 ... filen [find expression]

I wonder what's wrong with this code, can anyone help? Thanks!

Answer 1

[Zhilong Jia]

it seems you did not install STAR. what you used probably is star.

[GouthamAtla]

Good catch.