Qurstion about automating trimming process

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fastq metagenomics qc metatranscriptomics preprocessing

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  • MOSCA

    Meta-Omics Software for Community Analysis (by iquasere)

    • I also developed a neet preprocessing script, which uses FastQC reports to inform Trimmomatic on what parameters it should use, seems like exactly what you want. Its use is detailed in MOSCA's wiki, and you can obtain the script directly from GitHub here.

  • fastp

    An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

  • InfluxDB

    Power Real-Time Data Analytics at Scale. Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality.

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