FAQ       Help    Gene lengths for count data Question ID 135 Category Qlucore Omics Explorer   Data Import Date Created 2019-12-17 15:37:08 Date Updated 2023-04-25 13:55:42 For count data, how do I normally get access to gene lengths? Answer The Wizard can be used to import and normalize count data. Normalization methods such as TMM requires the length of all included genes. The gene length are a normal output from count generation software tools such as Salmon and HTSeq. For single cell data gene lengths should be 1 (depending on the technique, but true for 10x genomics and many other). This is because only the tail of each gene is kept and the number of reads is thus not proportional to the length of the gene. Related articles Analyze data from Array Express Analyzing Flow Cytometry data Convert from R to Qlucore data file format How does Qlucore calculate the length of the gene to do the normalization? How to import data (RNA-seq, Illumina, Affymetrix, 10x, Agilent, Wizard, tab separated, csv, txt, bam) How To Import TCGA Data Import Affymetrix data Import annotations Loading and creating annotations Manual import of data and annotations from GEO Normalization of imported RNA-seq data Normalization of RNAseq data in Qlucore Omics Explorer Save RNA-seq or Affymetrix files as .gedata Two colored arrays Use .sra files Was this information helpful?   Back to Search Results