The following command does not work:
rsem-calculate-expression --num-threads 8 --time --star --paired-end $fastq1 $fastq2 $(file_directory_output)
"Invalid number of arguments!"
Please does anyone have suggestions that might help me?
Hi, please read the manual, it is clearly explained how to run single-end files.
Remove --paired-end from your command and run as follows:
rsem-calculate-expression --num-threads 8 --time --star $fastq $(file_directory_output)
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