fastp

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

MIT License

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Ecosystems: C++

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fastp - Supports quality preview and index filtering

Published by sfchen over 6 years ago

fastp - Bug fixes and improvement on adapter detection

Published by sfchen over 6 years ago

fastp - Implement low complexity filter

Published by sfchen over 6 years ago

fastp - Improve trimming by sequence and quality cutting

Published by sfchen over 6 years ago

fastp - Improve adapter and polyG trimming a little

Published by sfchen over 6 years ago

fastp - A small fix for crash caused by trimAndCut

Published by sfchen almost 7 years ago

fastp - Improve adapter trimming for SE data

Published by sfchen almost 7 years ago

fastp - Support overrepresentation analysis

Published by sfchen almost 7 years ago

fastp - Support KMER counting

Published by sfchen almost 7 years ago

fastp - Support polyG tail trimming

Published by sfchen almost 7 years ago

For Illumina NextSeq/NovaSeq data, polyG can happen in read tails since G means no signal in the Illumina two-color systems. fastp can detect the polyG in read tails and trim them. This feature is enabled for NextSeq/NovaSeq data by default, and you can specify -g or --trim_poly_g to enable it for any data, or specify -G or --disable_trim_poly_g to disable it. NextSeq/NovaSeq data is detected by the machine ID in the FASTQ records.

fastp - Revision with number formatting and read number evaluation

Published by sfchen almost 7 years ago

fastp - Support UMI processing

Published by sfchen almost 7 years ago

fastp - Support splitting by lines

Published by sfchen almost 7 years ago

fastp - Support base correction by overlap analysis

Published by sfchen almost 7 years ago

fastp - Small bug fix for FASTQ format handling

Published by sfchen almost 7 years ago

fastp - Support long reads (PacBio / Nanopore)

Published by sfchen almost 7 years ago

fastp - Detect adapter sequence automatically for SE data

Published by sfchen almost 7 years ago

fastp - Support adapter trimming for single end data

Published by sfchen almost 7 years ago

use -s <adapter_sequence> to enable trimming for single end data

fastp - Support sliding window cutting by quality

Published by sfchen almost 7 years ago

fastp - Support splitting output

Published by sfchen almost 7 years ago

The output can be split to multiple files for parallel processing

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Top 34.12% on Formulae.brew.sh
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