Thank you GenoMax,
This really helped!
Ksenia
This really helped!
Ksenia
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bbduk.sh in1=file_1.fastq in2=file_2.fastq config=config.txt
out1={}.trimmed.fastq out2={}.trimmed.fastq statsfile={}.stats.txt bqhist={}.bqhist.txt
@test1 [COLOR="Red"]AAACCCTTT[/COLOR]ATAT[COLOR="Red"]AACCTT[/COLOR] + IIIIIIIIIIIIIIIIIII
./bbduk.sh in=test.fq out=stdout.fq literal=AACCTT ktrim=r k=6
@test1 AAACCCTTTATAT + IIIIIIIIIIIII Input: 1 reads 19 bases. KTrimmed: 1 reads (100.00%) 6 bases (31.58%) Total Removed: 0 reads (0.00%) 6 bases (31.58%) Result: 1 reads (100.00%) 13 bases (68.42%)
@test1 [COLOR="Red"]AAACCCTTT[/COLOR]ATAT[COLOR="Red"]AAACCCTTT[/COLOR] + IIIIIIIIIIIIIIIIIIIIII
./bbduk.sh in=test.fq out=stdout.fq literal=AAACCCTTT ktrim=r k=9
Input: 1 reads 22 bases. KTrimmed: 1 reads (100.00%) 22 bases (100.00%) Total Removed: 1 reads (100.00%) 22 bases (100.00%) Result: 0 reads (0.00%) 0 bases (0.00%)
@test1 A + I
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