Hi,
I'm a first time user to trimmomatic and I have paired-end RNA seq data. My question why do I get paired and unpaired output for each read at the output?
java -classpath <path to trimmomatic jar> org.usadellab.trimmomatic.TrimmomaticPE [-threads <threads>] [-phred33 | -phred64] [-trimlog <logFile>] <input 1> <input 2> <paired output 1> <unpaired output 1> <paired output 2> <unpaired output 2> <step 1>
I have used CLC genomics for trimming and using that I'll get two output files namely read1_trimmed.fastq and read2_trimmed.fastq. Why do I get 4 output files in trimmmomatic?
I'm a first time user to trimmomatic and I have paired-end RNA seq data. My question why do I get paired and unpaired output for each read at the output?
java -classpath <path to trimmomatic jar> org.usadellab.trimmomatic.TrimmomaticPE [-threads <threads>] [-phred33 | -phred64] [-trimlog <logFile>] <input 1> <input 2> <paired output 1> <unpaired output 1> <paired output 2> <unpaired output 2> <step 1>
I have used CLC genomics for trimming and using that I'll get two output files namely read1_trimmed.fastq and read2_trimmed.fastq. Why do I get 4 output files in trimmmomatic?
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