Package: shovill (1.1.0-7) [debports]

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Assemble bacterial isolate genomes from Illumina paired-end reads

Shovill is a pipeline which uses SPAdes at its core, but alters the steps before and after the primary assembly step to get similar results in less time. Shovill also supports other assemblers like SKESA, Velvet and Megahit, so you can take advantage of the pre- and post-processing the Shovill provides with those too.

Other Packages Related to shovill

• dep: bwa

  Burrows-Wheeler Aligner

• dep: flash

  Fast Length Adjustment of SHort reads

• dep: kmc

  count kmers in genomic sequences

• dep: lighter

  fast and memory-efficient sequencing error corrector

• dep: megahit

  ultra-fast and memory-efficient meta-genome assembler

• dep: perl

  Larry Wall's Practical Extraction and Report Language

• dep: pigz

  Parallel Implementation of GZip

• dep: pilon

  automated genome assembly improvement and variant detection tool

• dep: samclip

  filter SAM file for soft and hard clipped alignments

• dep: samtools

  processing sequence alignments in SAM, BAM and CRAM formats

• dep: seqtk

  Fast and lightweight tool for processing sequences in the FASTA or FASTQ format

• dep: skesa

  strategic Kmer extension for scrupulous assemblies

• dep: spades

  genome assembler for single-cell and isolates data sets

• dep: trimmomatic

  flexible read trimming tool for Illumina NGS data

• dep: velvet

  Nucleic acid sequence assembler for very short reads

Download shovill

Download for all available architectures

Architecture	Package Size	Installed Size	Files
ia64 (unofficial port)	13.1 kB	40.0 kB	[list of files]