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I use bowtie to align short reads to human genome from fasta file. However, bowtie doesn't stop running and only return partial alignment results.
The command is as follow: bowtie --quiet -y -a -n 3 -l 5 -e 150 -p 30 -f $HG38 ${file} | awk '{print $1,$2,$3,$4,$5,$8}' > ${DIR}/${FILE_NAME%.*}.out.tsv&
the result is:
When I use command mode by a single read input, the running process seems OK.
What is the problem here?
The text was updated successfully, but these errors were encountered:
I use bowtie to align short reads to human genome from fasta file. However, bowtie doesn't stop running and only return partial alignment results.
The command is as follow:
bowtie --quiet -y -a -n 3 -l 5 -e 150 -p 30 -f $HG38 ${file} | awk '{print $1,$2,$3,$4,$5,$8}' > ${DIR}/${FILE_NAME%.*}.out.tsv&
the result is:
When I use command mode by a single read input, the running process seems OK.
What is the problem here?
The text was updated successfully, but these errors were encountered: