News:fastp 0.22 released, with new FASTQ deduplication feature.
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8 weeks ago
chen ★ 2.3k

fastp is a fast all-in-one preprocessing tool for FASTQ data. Now a new version v0.22.0 has been released, with a FASTQ deduplication feature.

Specify -D or --dedup to enable this option.

fastp • 367 views
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Thanks for this program, it simplifies my life so much

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Hi,

I couldn't install the latest version from bioconda or with wget command, but I assume it was anaconda's bug; I managed to download it directly from the file section of github, so that was solved.

I couldn't use the deduplication function though, here was my command:

"./fastp -i S672_L1_1.fq -o S672_L1_1.fp.fq -I S672_L1_2.fq -O S672_L1_2.fp.fq -D"

and it returned this along with a 11Mb file compared to the 3.8Gb fastq file:

"Killed"

Hope you can look into this and point out if I did anything wrong or whatever led to this. Thanks.

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If error says "killed" then your job likely ran out or memory. Deduplication (assuming fastp is doing it in memory) will need a lot of it.

Please post questions about tools in a separate thread. This post is for announcement of a new tool.

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