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AlienTrimmer | A tool to trim off multiple short contaminant sequences from HTS reads

Detects and removes multiple alien sequences in both ends of sequence reads. Based on the decomposition of specified alien nucleotide sequences into k-mers, AlienTrimmer is able to determine whether such alien k-mers are occurring in one or in both read ends by using a simple polynomial algorithm. Therefore, AlienTrimmer can process typical HTS single- or paired-end files with millions of reads in several minutes with very low computer resources.

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1 user review

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cristo's avatar image

cristo

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simple, fast and useful tool

AlienTrimmer forum

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AlienTrimmer classification

AlienTrimmer specifications

Unique identifier:
OMICS_01082
Interface:
Command line interface
Biological technology:
Illumina, Life Technologies
Computer skills:
Advanced
Maintained:
Yes
Software type:
Package/Module
Restrictions to use:
None
Operating system:
Unix/Linux
Stability:
Stable

AlienTrimmer distribution

versioning

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No versioning.

Credits

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Publications

Institution(s)

Institut Pasteur, Genotyping of Pathogens and Public Health Platform (PF8), Paris, France

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