Entering edit mode
11 months ago
smithkthedale ▴ 10
Where are my feature count files going when I use this script:
featureCounts -a ncbi_dataset/data/GCA_002738495.1/genomic.gff \ -o Feature_counts.txt \ -p -s 2 -T 10 \ *_sorted.bam
It's running but can't find the file...no feature_counts.txt folder or cd?
Are they in these folders? I thought these folders were just the sam to bam conversion ones.
what should the new files end in? .featurecounts?
I think featureCounts prints a log to standard output, which if you provide to use can help us figure out the problem.
how do I use verbose in my script. when I type in verbose it says command not found
It says so already right below your question:
That means adding
--verboseto your featureCounts command anywhere before you type