Data import
Qlucore Omics Explorer (local as well as cloud) supports a wide variety of data and file formats, see below. The Import Wizard provides great flexibility.
The program supports multi-omics analysis of
- mRNA (RNA-seg including single cell)
- miRNA data
- proteomics (assays, mass spec, Olink,…)
- metabolomics
- DNA Methylated data
- qPCR
- Flow cytometry
- and more
Qlucore Omics Explorer base module supports the following file formats:
- Aligned BAM files (RNA-seq)
- 10X Genomics Cell Ranger output files (MEX & H5)
- Arbitrary count data using the import Wizard (*.txt, *.tsv, *.csv)
- Arbitrary continuous data using the import Wizard (*.txt, *.tsv, *.csv)
- ThermoFisher (Affymetrix) CEL files
- Affymetrix Probe Set Files (*.chp)
- Agilent text files (*.txt)
- Agilent Gene View files (*.txt)
- Qlucore Data files (*.gedata)
- Simple Data files (*.txt)
- Geo Data Sets (*.soft and *.soft.gz)
- Geo Series Matrix (*.txt and *.txt.gz)
- R data frame
The following files are supported for the NGS module:
- bam files
- vcf files
- bed files
- gtf files
- txt files for gene fusions
Annotations
It is possible to import annotations (clinical or other information). The annotations should be stored in a .txt, .tsv, csv or .chip file. The Annotation Import Wizard makes it straightforward to import data from files with many different layouts.
Cloud version
All types of data are supported after you have uploaded the data to the Cloud hub storage.
R users
For users who also use R it is possible to export data to an R data frame and an R data frame can also be read.
Read about all features in Qlucore Omics Explorer.