very low mapping rate of polysome profling seq
when i use sequencing data from SRR7695423
frist, i use fastp to trim raw reads: fastp -i r1_fastq.gz -I r2_fastq.gz -o r1_trimmed_fastq.gz -O r2_trimmed_fastq.gz
then i use STAR to align: STAR --runThreadN 20 --genomeDir index --readFilesIn r1_trimmed_fastq.gz r2_trimmed_fastq.gz --readFilesCommand 'zcat' --outFileNamePrefix sample_ --outSAMtype BAM SortedByCoordinate --quantMode TranscriptomeSAM GeneCounts
my mapping rate is ~20%, this is why?
• 696 views
•
link
0 answers
No answers yet.
Log in to answer this question.