AdapterRemoval specifications

Information


Unique identifier OMICS_01081
Name AdapterRemoval
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

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AdapterRemoval article

AdapterRemoval citations

 (6)
2017
PMCID: 5798962

[…] 10 billion. the average sampling depths of the serum and technical replicate samples were 17.9 and 19.5 million raw reads, respectively. the reads were initially trimmed for adapters using adapterremoval v2.1.7 [77]. we then mapped the collapsed reads (generated by fastx v0.14) to the human genome (hg38) using bowtie2 v2.2.9 (10 alignments per read were allowed). we compiled […]

2017
PMCID: 5743481

[…] paired‐end sequenced on illumina miseq platform at the danish national high‐throughput dna sequencing centre., the dataset consisted of 27,073,487 paired‐end reads. raw reads were processed using adapterremoval (lindgreen, 2012), trimming low‐quality bases, and discarding reads shorter than 30 bp. only collapsed reads with an overlap of 11 bp were used for downstream analysis. reads […]

2016
PMCID: 4776208

[…] read in a pair was kept as a singleton. overlapping paired reads from short inserts were collapsed into a single read if the overlap was longer than 11 bp, according to the default behaviour of adapterremoval., preprocessed reads were filtered if they showed homology to the human reference genome, which included decoys and alternative sequences from version gca_000001405.15 (grch38) […]

2015
PMCID: 4644222

[…] from ncbi or downloaded as reads and de novo assembled using spades-3.5.0 (bankevich et al., 2012) with the–careful and–cov-cutoff auto options., raw reads were trimmed for adaptor sequences using adapterremoval-1.5.4 (lindgreen, 2012). additionally leading and trailing ns were removed as well as bases with quality 2 or less. hereafter, the trimmed reads with a length of at least 30 nt […]

2015
PMCID: 4472885

[…] were built using the nebnext library kit e6070 and sequenced on the illumina hiseq 2000 platform, yielding a total of 20,483,838 paired-end reads. reads were processed, trimmed, and assembled using adapterremoval (v1.1) (5), novobarcode beta-0.8, and ray (2.3.1) (6). lastly, contigs were extended and scaffolded by sspace basic (v.2.0) (7), yielding a set of scaffolds of which sequences shorter […]

AdapterRemoval institution(s)
Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark

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