High-throughput sequencing data analysis bioinformatics software tools

High-throughput sequencing applications

High-throughput sequencing (HTS) or next-generation sequencing (NGS) technologies have revolutionized the biomedical research during the past decade. The ability to sequence multiple DNA molecules in parallel allows to produce quickly very large data sets for genomics,…

High-throughput sequencing data analysis bioinformatics software tools

Most Recent Tools

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SNVSniffer
Desktop

SNVSniffer

Identifies both germline and somatic single nucleotide variants (SNVs)/indels…

Identifies both germline and somatic single nucleotide variants (SNVs)/indels from next-generation sequencing (NGS) data. SNVSniffer is an integrated caller. It consists of five components: a single…

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ParaBWT
Desktop

ParaBWT

Employs a progressive construction approach to incrementally build the…

Employs a progressive construction approach to incrementally build the Burrows-Wheeler transform (BWT) of a single genomic sequence segment-by-segment. ParaBWT is a practical parallel BWT and suffix…

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riboShape
Desktop

riboShape

Predicts ribosome footprint profile shapes from transcript sequences. Riboshape…

Predicts ribosome footprint profile shapes from transcript sequences. Riboshape is a suite of algorithms. It applies kernel smoothing to codon sequences to build predictive features, and uses these…

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microbeGPS
Desktop

microbeGPS

Identifies microbial organisms in metagenomic sequencing data, estimates their…

Identifies microbial organisms in metagenomic sequencing data, estimates their abundance, and quantifies their distances to known reference genomes. MicrobeGPS is a bioinformatics software for the…

Most Popular Tools

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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

An ultrafast, memory-efficient short read aligner. It aligns short DNA…

An ultrafast, memory-efficient short read aligner. It 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…

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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…

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