Sorry for the late reply, actually i understood the error , actually the output generated by me through bowtie2 was index not genome_index_base, so that was the error. Command that i wrote for building index was
bowtie2-build genome.fa index
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rishav513 •
Did you generate the index for bowtie?
and if so, where are those files located? if they are not in the directory where you are running that cmdline, you will need to add the path to the location where you've placed the index files.
Sorry for the late reply, actually i understood the error , actually the output generated by me through bowtie2 was index not genome_index_base, so that was the error. Command that i wrote for building index was