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Transcriptome browsers | RNA sequencing data analysis

In the end, most de novo RNA-seq studies result in a multitude of different datasets, including sequences, their annotation, expression levels and DE as well as co-expression testing results. Since most of the datasets contain thousands of entries…
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Expression…
Web

Expression Angler

Identifies genes showing similar expression or response profiles from selected…

Identifies genes showing similar expression or response profiles from selected databases. Expression Angler employs the Pearson correlation coefficient to identify co-regulated genes. It provides…

ePlant
Web

ePlant

Allows exploration of Arabidopsis thaliana through multiple levels. ePlant…

Allows exploration of Arabidopsis thaliana through multiple levels. ePlant permits researchers to extract information from their data. It can identify connections between layers and facilitate…

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Arabidopsis…
Web

Arabidopsis eFP Browser

Allows exploration of Arabidopsis microarray data to permit intuitive…

Allows exploration of Arabidopsis microarray data to permit intuitive visualization of gene expression data across approximately 22,000 genes from Arabidopsis thaliana. Arabidopsis eFP Browser allows…

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SuperTranscript
Desktop

SuperTranscript

Visualizes transcript structure for model and non model organisms.…

Visualizes transcript structure for model and non model organisms. SuperTranscript acts as a reference for transcriptome data, where each gene is represented by a single sequence that contains the…

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GOexpress
Desktop

GOexpress

An R/Bioconductor package for identification and visualisation of gene…

An R/Bioconductor package for identification and visualisation of gene expression profiles that best classify sample groups according to any known experimental factor. In contrast to most GO term…

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BioWardrobe
Desktop
Web

BioWardrobe

Allows users to store, visualize and analyze epigenomics and transcriptomics…

Allows users to store, visualize and analyze epigenomics and transcriptomics data using a biologist-friendly web interface, without the need for programming expertise. Predefined pipelines allow…

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expVIP
Web
Desktop

expVIP expression Visualization and Integration Platform

Creates a gene expression interface for any species with a transcriptome…

Creates a gene expression interface for any species with a transcriptome assembly available. expVIP is an adaptable platform to provide a user-friendly virtual machine implementation that allows…

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Heat*seq
Web
Desktop

Heat*seq

A web-tool that allows genome scale comparison of high throughput experiments…

A web-tool that allows genome scale comparison of high throughput experiments (ChIP-seq, RNA-seq and CAGE) provided by a user, to the data in the public domain. Heat*seq allows users to contextualise…

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RNAseqViewer
Desktop

RNAseqViewer

Let you visualize the various data from the RNA-Seq analyzing process, for…

Let you visualize the various data from the RNA-Seq analyzing process, for single or multiple samples.

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TraV
Desktop

TraV

Offers an interface for RNA-Seq analysis coupled to a visualization viewer.…

Offers an interface for RNA-Seq analysis coupled to a visualization viewer. TraV aims to determine RNA-based regulators into a genome and supplying automatic candidate lists and interactive…

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GRACOMICS
Desktop

GRACOMICS

Enables easy comparison of several methods for analyzing specific omics data…

Enables easy comparison of several methods for analyzing specific omics data platforms by any user. The four omics data employed are active areas of study in bioinformatics. GRACOMICS is composed of…

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RNASeqBrowser
Desktop

RNASeqBrowser

Consists of a visualization tool offering the same functionalities as the…

Consists of a visualization tool offering the same functionalities as the genomic browser UCSC. RNASeqBrowser contains next generation sequencing (NGS) visualization tool and increases features of…

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CummeRbund
Desktop

CummeRbund

A tool for visualizing RNA-seq analysis results. CummeRbund takes the various…

A tool for visualizing RNA-seq analysis results. CummeRbund takes the various output files from a cuffdiff run and creates a SQLite database of the results describing appropriate relationships…

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TranscriptomeBr…
Dataset

TranscriptomeBrowser

Gathers information about human and mouse molecular interactions.…

Gathers information about human and mouse molecular interactions. TranscriptomeBrowser is a repository with a set of tables storing more than 1 500 000 interactions. It includes: (1) interaction…

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RNASeqExpressio…
Web

RNASeqExpressionBrowser

A web-based tool which provides means for search and visualization of RNA-seq…

A web-based tool which provides means for search and visualization of RNA-seq expression data (e.g. based on sequence-information or domain annotations).

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RNAbrowse
Desktop
Web

RNAbrowse

A user oriented storage and visualisation environment permitting to explore the…

A user oriented storage and visualisation environment permitting to explore the data in a top-down manner, going from general graphical views to all possible details. The software package is based on…

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tbrowse
Web

tbrowse

This project aims to provide a simple, intuitive browser for exploring RNA-seq…

This project aims to provide a simple, intuitive browser for exploring RNA-seq data in the familiar track layout of common genome browser.

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ViennaNGS
Desktop

ViennaNGS

An integrated collection of Perl modules focused on building efficient…

An integrated collection of Perl modules focused on building efficient pipelines for NGS data processing. ViennaNGS comes with functionality for extracting and converting features from common NGS…

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Cbrowse
Desktop
Web

Cbrowse

Permits visualization and analysis of transcriptome assemblies and their…

Permits visualization and analysis of transcriptome assemblies and their individual contigs. Cbrowse can decouple interactions with users from interactions with the server. It detects simple sequence…

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EcoBrowser
Web

EcoBrowser

Allows searching genome annotations through transcriptome expression profiles…

Allows searching genome annotations through transcriptome expression profiles of E. coli. EcoBrowser permits users to select genomic regions of interest and then select the transcriptome data to be…

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RobiNA
Desktop

RobiNA

A User Friendly Graphical Interface to Powerful Open Source Microarray and…

A User Friendly Graphical Interface to Powerful Open Source Microarray and RNA-Seq Processing.

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