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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VirusTAP
Web

VirusTAP Virus genome-Targeted Assembly Pipeline

Assembles virus genomes from next generation sequencing (NGS) reads. VirusTAP…

Assembles virus genomes from next generation sequencing (NGS) reads. VirusTAP is a web based platforms for the viral genome that performs the following informatics steps: (i) quality trimming and…

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SinCHet
Desktop

SinCHet SINgle Cell HETerogeneity

Can quantify cellular heterogeneity and identify novel candidate biomarkers.…

Can quantify cellular heterogeneity and identify novel candidate biomarkers. SinCHet is a MATLAB package with a graphical user interface (GUI) for visualization and user interaction, originally for…

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MirSTP
Desktop

MirSTP MIRna transcription Start sites Tracking Program

Identifies active microRNA transcription start sites (miRNA TSSs) from nascent…

Identifies active microRNA transcription start sites (miRNA TSSs) from nascent transcriptomes. MirSTP provides accurate TSS prediction for human intergenic miRNAs at a high resolution by using…

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Fast…
Desktop

Fast Seed-and-Vote Aligner

Extracts seeds from the read to vote the coordinate. FSVA is based on the…

Extracts seeds from the read to vote the coordinate. FSVA is based on the seed-and-vote strategy to build a hash table for a reference genome. It lies in the longer seed in order to permit improved…

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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