套件：bbmap（39.09+dfsg-1）
BBTools genomic aligner and other tools for short sequences
The BBTools are a collection of small programs to solve recurrent tasks for the creative handling of short biological RNA/DNA sequences. This suite may be best known for its mapper, which is also the name of the project on sourceforge, but several tools have been added over time. All tools are multi-threaded, implemented platform-independently in Java:
BBMap: Short read aligner for DNA and RNA-seq data. Capable of handling arbitrarily large genomes with millions of scaffolds. Handles Illumina, PacBio, 454, and other reads; very high sensitivity and tolerant of errors and numerous large indels.
BBNorm: Kmer-based error-correction and normalization tool.
Dedupe: Simplifies assemblies by removing duplicate or contained subsequences that share a target percent identity.
Reformat: Reformats reads between fasta/fastq/scarf/fasta+qual/sam, interleaved/paired, and ASCII-33/64, at over 500 MB/s.
BBDuk: Filters, trims, or masks reads with kmer matches to an artifact/contaminant file.
其他與 bbmap 有關的套件
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- dep: libmpj-java
- Java library for parallel applications for multicore processors and clusters
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- dep: openjdk-17-jre-headless
- OpenJDK Java runtime, using Hotspot JIT (headless)
- 或者 java-runtime-headless
- 本虛擬套件由這些套件填實： default-jre-headless, openjdk-11-jre-headless, openjdk-19-jre-headless, openjdk-20-jre-headless
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- rec: pigz
- Parallel Implementation of GZip