skewer
post-processing of high-throughput DNA sequence reads
Command lineScience
Not tested on a device yet. What that means
Commands in the package
skewer
About skewer
From Debian's package description
skewer implements the bit-masked k-difference matching algorithm dedicated to the task of adapter trimming and it is specially designed for processing next-generation sequencing (NGS) paired-end sequences.
Features
- Detection and removal of adapter sequences
- Insertion and deletion allowed in pattern matching
- Targeted at Single End, Paired End (PE), and Long Mate Pair (LMP) reads
- Demultiplexing of barcoded sequencing runs
- Multi-threading support
- Trimming based on phred quality scores
- IUPAC characters for barcodes and adapters
- Compressed input and output support
From Debian's description of the skewer package, under that package's license.
Dependencies
Depends on
libc6libgcc-s1libstdc++6
Related apps
- FastQC quality controlquality control for high throughput sequence data
- wisecomparison of biopolymers, like DNA and protein sequencesCommand line
- seqtkFast and lightweight tool for processing sequences in the FASTA or FASTQ formatCommand line
- prankProbabilistic Alignment Kit for DNA, codon and amino-acid sequencesCommand line
- cutadaptClean biological sequences from high-throughput sequencing readsCommand line
- dascrubberalignment-based scrubbing pipeline for DNA sequencing readsCommand line
Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the skewer package, under that package's license.
- Description: Debian's description of the skewer package, under that package's license.
- Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
- Popularity: Debian Popularity Contest counts.
More in About the catalog.