seqtk/seqtk_sample

sample

FASTA

FASTQ

Description

Subsamples sequences from FASTA/Q files.

Type

bash_script

License

MIT

Keywords

sample

FASTA

FASTQ

Links

Repository

Contributors

Launch

Run this component

Run the following command to execute this component with Nextflow:

cat > params.yaml <<'EOM'  
output: "$id.$key.output"  
id: "run"  
publish_dir: "output/"  
EOM

nextflow run https://packages.viash-hub.com/vsh/biobox.git \  
  -revision v0.4.0 \  
  -main-script target/nextflow/seqtk/seqtk_sample/main.nf \  
  -params-file params.yaml

Inputs

Name	Type & Properties	Description
--input	file required	The input FASTA/Q file.

Name

Type & Properties

--input

file

required

Outputs

Name	Type & Properties	Description
--output	file required output	The output FASTA/Q file.

Name

Type & Properties

--output

file

required

output

Options

Name	Type & Properties	Description
--seed	integer	Seed for random generator.
--fraction_number	double required	Fraction or number of sequences to sample.
--two_pass_mode	boolean_true	Twice as slow but with much reduced memory

Name

Type & Properties

--seed

integer

--fraction_number

double

required

--two_pass_mode

boolean_true