Whole-genome sequencing data analysis bioinformatics software tools

Whole genome sequencing (WGS) is the next-generation sequencing technology for a rapid and low cost determining of the full genomic sequence of an organism. Deep sequencing of genomes is important not only to improve our knowledge in life sciences and evolutionary biology but…

WGS analysis steps

Preprocessing & quality control

Data analysis

Annotation & interpretation

File, data & workflows

WGS analysis workflow

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WGS analysis workflow schema

Most recent bioinformatics tools

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NanoPlot
Desktop

NanoPlot

Extracts data for Oxford Nanopore sequencing data and alignments. NanoPlot…

Extracts data for Oxford Nanopore sequencing data and alignments. NanoPlot creates, for each work, a NanoStats file including a summarize of key features of the dataset. It also creates various plots.

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PyVCF
Desktop

PyVCF

Provides a way to read Variant Call Format files for Python.

Provides a way to read Variant Call Format files for Python.

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ISEA
Desktop

ISEA Iterative Seed-Extension Algorithm

Provides an iterative seed-extension algorithm for de novo assembly. ISEA…

Provides an iterative seed-extension algorithm for de novo assembly. ISEA comports five steps: (i) preprocessing, (ii) graph and seed building, (iii) contig extension, (iv) merging and (v)…

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GenomeSpace
Dataset

GenomeSpace

Represents a cloud-based and cooperative community resource. GenomeSpace…

Represents a cloud-based and cooperative community resource. GenomeSpace contains a large collection of bioinformatics tools. It allows seamless transition between tools and the large set of…

Most popular analytical software

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SAMtools
Desktop

SAMtools

A suite of programs for interacting with high-throughput sequencing data. It…

A suite of programs for interacting with high-throughput sequencing data. It can manipulate alignments in the SAM/BAM/CRAM formats : reading, writing, editing, indexing, viewing and converting…

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Bowtie
Desktop

Bowtie

A short read aligner that aligns short DNA sequences (reads) to the human…

A short read aligner that aligns short DNA sequences (reads) to the human genome at a rate of over 25 million 35-bp reads per hour. Bowtie indexes the genome with a Burrows-Wheeler index to keep its…

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SNPdryad
Web

SNPdryad

A computational method that can predict deleterious effect of amino acid…

A computational method that can predict deleterious effect of amino acid substitutions occurred in human proteins. SNPdryad outperforms other leading algorithms in accurately predicting deleterious…

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HOMER
Desktop

HOMER Hypergeometric Optimization of Motif EnRichment

A suite of tools for Motif Discovery and next-gen sequencing analysis. HOMER…

A suite of tools for Motif Discovery and next-gen sequencing analysis. HOMER contains many useful tools for analyzing ChIP-Seq, GRO-Seq, RNA-Seq, DNase-Seq, Hi-C and numerous other types of…

Curators for WGS analysis

  • Catherine Breton's avatar image
    Catherine Breton
    Institut des Sciences de…
  • Rory Miles's avatar image Rory Miles's country flag
    Rory Miles
    Liverpool School of Tropical…

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