Пакунок: plasmidid (1.6.3+dfsg-3)

[ Source: plasmidid  ]

mapping-based, assembly-assisted plasmid identification tool

PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identification.

PlasmidID is a computational pipeline that maps Illumina reads over plasmid database sequences. The k-mer filtered, most covered sequences are clustered by identity to avoid redundancy and the longest are used as scaffold for plasmid reconstruction. Reads are assembled and annotated by automatic and specific annotation. All information generated from mapping, assembly, annotation and local alignment analyses is gathered and accurately represented in a circular image which allow user to determine plasmidic composition in any bacterial sample.

Інші пакунки пов'язані з plasmidid

• dep: bedtools

  suite of utilities for comparing genomic features

• dep: bowtie2

  ultrafast memory-efficient short read aligner

• dep: cd-hit

  suite of programs designed to quickly group sequences

• dep: circos

  Графобудівник для візуалізації даних

• dep: mash

  fast genome and metagenome distance estimation using MinHash

• dep: ncbi-blast+

  next generation suite of BLAST sequence search tools

• dep: prokka

  rapid annotation of prokaryotic genomes

• dep: python3

  Інтерактивна обʼєктно-орієнтована мова високого рівня (типова версія „python3“)

• dep: samtools

  processing sequence alignments in SAM, BAM and CRAM formats

• rec: python3-biopython

  Python3 library for bioinformatics

• rec: python3-numpy

  Швидкі методи для роботи з числовими масивами для мови Python 3

• rec: python3-pandas

  data structures for "relational" or "labeled" data

• rec: spades

  genome assembler for single-cell and isolates data sets

• rec: trimmomatic

  flexible read trimming tool for Illumina NGS data

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Архітектура	Розмір пакунка	Розмір після встановлення	Файли
amd64	45.2 kB	329.0 kB	[список файлів]