recipe n50

calculate N50 from FASTA/FASTQ files, producing both machine and human friendly outputs

Homepage:

http://metacpan.org/pod/Proch::N50

Documentation:

https://github.com/quadram-institute-bioscience/seqfu/wiki/n50

Developer docs:

https://github.com/quadram-institute-bioscience/seqfu/

License:

mit

Recipe:

/n50/meta.yaml

Links:

biotools: n50, doi: 10.3390/bioengineering8050059

a program to calculate size metrics of a FASTA (or FASTQ) file: minimum, maximum, average length, N50, N75, N90 and the area of the Nx curve (auN). Gzipped files are supported as input, and the output can be in compact, csv, tsv, json or screen friendly format.

package n50

Versions:

1.5.6-0,  1.5.5-0,  1.5.4-0,  1.5.0-0,  1.4.10-1,  1.4.10-0,  1.4.2-2,  1.4.2-1,  1.4.2-0, 

1.5.6-0,  1.5.5-0,  1.5.4-0,  1.5.0-0,  1.4.10-1,  1.4.10-0,  1.4.2-2,  1.4.2-1,  1.4.2-0,  1.4.1-0,  1.3.0-1,  1.3.0-0,  1.2.0-0,  1.0.0-0,  0.92-0,  0.90-0,  0.83-0,  0.82-0,  0.80-0,  0.60-3,  0.60-2,  0.60-1,  0.60-0

Depends:

• perl >=5.32.1,<6.0a0 *_perl5

• perl-exporter

• perl-fastx-reader >=1.8.0

• perl-file-which

• perl-getopt-long

• perl-json-pp

• perl-perlio-encoding

• perl-pod-usage

• perl-text-asciitable

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install n50

and update with:

conda update n50

or use the docker container:

docker pull quay.io/biocontainers/n50:<tag>

(see n50/tags for valid values for <tag>)

Download stats

Link to this page

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