A Linux server reports an error when processing RNA-seq data comparison
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4 months ago
STAR --runThreadN 5 --genomeDir 03index_dir \
--readFilesCommand zcat \
--readFilesIn 02claen_data/*_trimmed.fq.gz \
--outFileNamePrefix 04aligen_out/sample1

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There is no problem with the code, but the fq.gz data cannot be read for comparison.I'm really at a loss, I hope someone can help me out, thank you!

Linux • 361 views
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From STAR manual:

Multiple samples can be mapped in one job. For single-end reads use a comma separated
list (no spaces around commas), e.g. --readFilesIn sample1.fq,sample2.fq,sample3.fq.
For paired-end reads, use comma separated list for read1 /space/ comma separated
list for read2, e.g.: --readFilesIn sample1read1.fq,sample2read1.fq,sample3read1.fq
sample1read2.fq,sample2read2.fq,sample3read2.fq.
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