Description

Filtlong filters long reads based on quality measures or short read data.

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

shortreads (file)

fastq file

*.{fq,fastq,fq.gz,fastq.gz}

longreads (file)

fastq file

*.{fq,fastq,fq.gz,fastq.gz}

Output

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

versions (file)

File containing software versions

versions.yml

reads (file)

Filtered (compressed) fastq file

*.fastq.gz

log (file)

Standard error logging file containing summary statistics

*.log
included in
taxprofiler
authors
Github user d4straub Github user sofstam
get in touch
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Tools

filtlong
GPL v3

Filtlong is a tool for filtering long reads. It can take a set of long reads and produce a smaller, better subset. It uses both read length (longer is better) and read identity (higher is better) when choosing which reads pass the filter.

anaconda.org/bioconda/filtlong https://github.com/rrwick/Filtlong