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Published on: September 16, 2019
SNIKT: sequence-independent adapter identification and removal in long-read shotgun sequencing data
Piyush Ranjan1, Christopher A Brown1,2, John R Erb-Downward1
1Division of Pulmonary and Critical Care Medicine, Department of Internal Medicine, University of Michigan Medical School, Ann Arbor, MI 48109, USA.
Summary:
Here, we introduce SNIKT, a command-line tool for sequence-independent visual confirmation and input-assisted removal of adapter contamination in whole-genome shotgun or metagenomic shotgun long-read sequencing DNA or RNA data.
Availability And Implementation:
SNIKT is implemented in R and is compatible with Unix-like platforms. The source code, along with documentation, is freely available under an MIT license at https://github.com/piyuranjan/SNIKT.
Supplementary Information:
Supplementary data are available at Bioinformatics online.
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