Question: Filtering Fastq File According To Qual Score
0
Haluk Dogan • 20 wrote:
Hi,
I am trying to filter my fastq file with the condition of if quality
score
of reads is less then min score.
So far, I have tried both *fastq_quality_filter* and *Filter FASTQ
under NGS:
QC and manipulation** *but I was not be able to do it.
In the following you can see my fastq file.
@F4HZV5G02CX6WP rank=0000096 x=1092.0 y=1767.0 length=45
TTGAGCAGCGGCGTCACGGCGGCGGCCTCGGCGGCCGCATAGGCG
+
FFFFFFFFFFFIIIIIIIIIIIIIIIIIIIIIIIIIHFFDDBDA>
And these are quality scores.
[37, 37, 37, 37, 37, 37, 37, 37, 37, 37, 37, 40, 40, 40, 40, 40, 40,
40, 40,
40, 40, 40, 40, 40, 40, 40, 40, 40, 40, 40, 40, 40, 40, 40, 40, 40,
39, 37,
37, 35, 35, 33, 35, 32, 29]
I want to filter bases if their quality scores are less than 33.
Any help would be greatly appreciated.
--
HD
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modified 7.3 years ago
by
Florent Angly • 370
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written
7.3 years ago by
Haluk Dogan • 20
