fastp
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OpenGene
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
Hello, I'm running the following command in my terminal: **fastp -i user/nanopore/inputs/ -o user/nanopore/outputs/ -A -G --qualified_quality_phred 10 --reads_to_process 5000 --thread 8** Although I'm specifying the number of reads to...
某些公司的UMI长度为7bp，但是只有2-4bp用于UMI校对（例如 何因生物 UMI接头），所以添加umi_skipb功能 
I am trying to install fastp tool on my Mac M1. So far, I have tried all these options download `osx-64_fastp-0.23.4-h5712c04_2.tar.bz2` then, `conda install osx-64_fastp-0.23.4-h5712c04_2.tar.bz2` The fastp file is not...
I just followed the instruction provided in the readme. I successfully installed fastp on my m2 macbook air in directory /usr/local/bin/fastp. After that, I tried to trim my paired-end data....
I'm trying to get a splitted interleaved output for a pair end experiment, but I cannot find the proper command line. Is this even possible? I tried ``` $ fastp...
We would like to reconstruct the input fastq from fastp output. It would be helpful we could store duplicate reads as output, similar to `--failed_out` for filtered reads.
Are there any resources that walk through how to interpret the output plots in the html file? As it what plots might look like when reads are looking excellent, passable,...
The r2 reads is specified with GTGAGTGATGGTTGAGGTAGTGTGGAG at 5'. So I use `--adapter_sequence_r2 GTGAGTGATGGTTGAGGTAGTGTGGAG` to identify the valid reads, and the command is shown below: ``` fastp \ --in1 ${sampleID}_R1.fq.gz...
In some of the fastq files that I have, there are some problematic rows, such as this: ``` AAAAAEEEE... @NB552437:11:HY5W2BGXG:1:11101:12897:1306 1:N:0:GAATTCGT+GTCAGTAC + @NB552437:11:HY5W2BGXG:1:11101:22688:1308 1:N:0:GAATTCGT+GTCAGTAC CAGCGAGGG... + AAAAAEEEE... @NB552437:11:HY5W2BGXG:1:11101:9713:1313 1:N:0:GAATTCGT+GTCAGTAC TTTTCTTGA......
