Dear all, Happy new year 2020.
I am performing the small RNA seq data analysis and I want to find the miRNAs in my data using the miRDeep2.
I have indexed my genome successfully using the command bowtie-build genome.fa genome
But when I run the command
mapper.pl control1.fastq -c -j -l 18 -m -p genome \ -s reads_collapsed.fa -t reads_collapsed_vs_genome.arf -v
for mapping it always fail and instructs me to run the perl install.pl script in miRDeep package folder. Then I run this script in miRDeep package but problem remains same.
Following is my error message on terminal.
harshraj@harshraj-XPS-8930:~/Desktop/SmallRNAseqdata$ mapper.pl control1.fastq -c -j -l 18 -m -p genome \ -s reads_collapsed.fa -t reads_collapsed_vs_genome.arf -v Please run the install.pl script first before using the miRDeep2 package The install script is located in /home/harshraj/mirdeep2_pa so just do cd /home/harshraj/mirdeep2_pa perl install.pl
What should I do in this case? Can anyone help me out
Thank you in advance.