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Paquet : ariba (2.14.6+ds-3build1)

Antibiotic Resistance Identification By Assembly

ARIBA is a tool that identifies antibiotic resistance genes by running local assemblies. The input is a FASTA file of reference genes and paired sequencing reads. ARIBA reports which of the reference genes were found, plus detailed information on the quality of the assemblies and any variants between the sequencing reads and the reference genes.

Autres paquets associés à ariba

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  • dep: bowtie2 (>= 2.1.0)
    ultrafast memory-efficient short read aligner
  • dep: cd-hit
    suite of programs designed to quickly group sequences
  • dep: fastaq (>= 3.12.0)
    FASTA and FASTQ file manipulation tools
  • dep: libc6 (>= 2.17)
    GNU C Library: Shared libraries
    un paquet virtuel est également fourni par libc6-udeb
  • dep: libfml0 (>= 0.1-4~)
    library for assembling Illumina short reads in small regions
  • dep: libgcc-s1 (>= 3.3.1)
    GCC support library
  • dep: libminimap0 (>= 0.2)
    library for approximate mapping of long biosequences
  • dep: libstdc++6 (>= 5.2)
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  • dep: mash
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  • dep: mummer
    Efficient sequence alignment of full genomes
  • dep: python3
    interactive high-level object-oriented language (default python3 version)
    dep: python3 (<< 3.11)
    dep: python3 (>= 3.10~)
  • dep: python3-biopython
    Python3 library for bioinformatics
  • dep: python3-bs4
    error-tolerant HTML parser for Python 3
  • dep: python3-dendropy
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  • dep: python3-matplotlib
    Python based plotting system in a style similar to Matlab (Python 3)
  • dep: python3-pymummer (>= 0.10.2)
    Python 3 interface to MUMmer
  • dep: python3-pysam (>= 0.9.1)
    interface for the SAM/BAM sequence alignment and mapping format (Python 3)
  • dep: python3-tk
    Tkinter - Writing Tk applications with Python 3.x
  • dep: zlib1g (>= 1:1.1.4)
    compression library - runtime
  • sug: spades
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Télécharger ariba

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ppc64el 1 999,5 ko20523 ko [liste des fichiers]