RNA seq analysis

RNA-seq Analysis

With a few mouse clicks aligned BAM files are imported (including normalization) and the discriminating genes are identified and visualized.

Qlucore Omics Explorer is a D.I.Y next-generation bioinformatics software for research in life science, plant- and biotech industries, as well as academia. The powerful visualization-based data analysis tool with inbuilt powerful statistics delivers immediate results and provides instant exploration and visualization of big data.

                                     RNA seq analysis

Analysis of RNA-seq data

Bioinformatic software solutions for analysis of RNA-seq (rnaseq) data tend to be complex. Qlucore Omics Explorer makes the analysis of RNA-seq data easy and accessible for biologists and bench scientists.

The main application is to work with digital gene expression. The inbuilt workflow for RNA-seq data includes a first step for import of aligned BAM files. The second step is normalization based on the TMM, TPM or FPKM methods. After this the bioinformatic analysis and visualization of the RNA-seq data can start.

If your RNA-seq data has already been pre-normalized, you can import it in a txt of csv file using the Wizard. 

All functionality in Qlucore Omics Explorer can be used to provide new and interesting insights.

Key functionalities:

  • Import and normalize aligned BAM files
  • Identify discriminating features(genes) with a few mouse clicks
  • Visualize data and do data mining and data exploration
  • Show results in the flexible and easy-to-use heatmap with hierarchical clustering
  • Verify your hypotheses using powerful statistics including ANOVA and different forms of regressions
  • Compare with pathways and other biological information using the integrated and user friendly Gene Set Enrichment analysis (GSEA) Workbench
  • No wait, all analysis, statistics and plots are updated directly
  • Extensive plot library both in 2D and 3D - e.g PCA, heatmaps, t-SNE, box, scatter, volcano plots, Venn diagram, Kaplan Meier plots etc.
  • Using the  Genome Browser to visualize your genes of interest


Read about single cell RNA-seq analysis

Import RNA-seq data

Introduction video.

Does it work on my data?

Answer the four quick questions below and find out if you can use Qlucore on your data. 

For more details about supported data formats and data import see Data Import or Contact us with questions.

Case studies

RNA-Seq analysis using Qlucore

Stanford University, US

Performing gene expression analysis based on RNA sequencing data, in Dilated Cardiomyopathy studies.

Read more

Using Qlucore in epigenetics research studies

Cancer Genetics Program at the Hospital for Sick Children (SickKids) in Toronto, Canada.

A range of samples including DNA from patient blood, primary tissue from tumors, and cell lines, are studied.

Read more

Analysis of public data using Qlucore

Beijing Normal University, China

This case study is an example of how the use of public information from multiple sources was used to propose a new classification for glioma cancer.

Read more

Protein data analysis in Hepatitis studies

Institute Pasteur, France

Understanding viral signatures in Hepatitis C. Qlucore Omics Explorer is used to identify differences in chemokines between the virally infected groups.

Read more

Short introduction video

Watch here

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