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• Use of slice to estimate rpkm/fpkm
  When estimating transcript levels from RNA Seq data that have been normalized using rpkm or fpkm,...
• I want to know how data is normalized between control group and test group in differential rna seq analysis. Can somebody please explain or suggest some references
  I am a beginer in rnaseq data analysis. I want to know how data is normalized between control gro...
• GSEA to RNA-seq data
  Good morning, I want to do GSEA to my rna-seq data, so i have my dataset built with gene names an...
• Analysis workflow of miRNA-seq data
  I'm looking to analyse RNA-Seq data from miRNA. How similar is the workflow to RNA-seq analysis?
• How To Find Out Snps And Point Mutations In Rna-Seq Data Using Galaxy?
  HI, I am new to the RNA-seq, and the only available sources for me to do analysis is the Galaxy s...
• Normalization of RNA-seq data
  Hi, I am wanting to normalize my RNA-seq data without running a differential gene expression on...
• Creating Heatmap from RNA-seq
  How to create a heatmap using RNA-Seq data? We analyze the RNA-seq using Tophat-Cufflink-Cuffdiff...
• How to get sequence for a single gene from an RNA Seq file?
  Is there a way to extract the sequence data for a single gene from a RNA Seq1 data file?
• Are reads number normalized on transcript length ?
  Hello, I used featurecounts to obtain reads number from a RNA-seq file (.bam). I would know if t...
• RNA-seq data extract
  Galaxy upload RNA-seq data（.gz） need to extract it？ How to extract RNA-seq data（.gz）？ Thanks!
• Is the public server still planning to implement HISAT?
  Is the public server still planning to implement HISAT anytime soon? I haven't been using Galaxy ...
• No ht-seq in main Galaxy menu?
  Why is there no way in the main Galaxy menu to produce a raw counts matrix (not normalized and no...
• Chip-Seq Normalization To Total Number Of Reads
  Dear Galaxy, I am trying to analyze my ChIP-Seq data from Illumina using Galaxy. I have 2 datase...
• Cufflinks assembles very small number of transcripts from RNA-seq data
  I mapped RNA-seq data to reference genome and tried to assemble transcripts using cufflinks.It is...
• Trimmomatic output after filtering paired end data - fastqsanger vs fastqsanger.gz
  After running Trimmomatic on a paired end PolyA RNA-seq dataset where both forward and reverse re...
• Error - Heatmap generation / visualization from RNA-seq data using DESeq2 workflow
  Hi I wanted to try generating heatmaps of gene expression using normalized counts file obtained ...
• RNA-seq Analysis after CuffDiff: Clustering, etc
  Hello -  I am very new to RNA-seq analysis and am trying to figure out my next steps. I ran Toph...
• RNA-seq data analysis workflow!
  Hello, I am a newcomer to galaxy based data analysis.I am looking for a workflow to analyse RNA-...
• TRINITY taking forever
  I am trying to build a transcriptome from RNA NGS data in FASTQ format using TRINITY. It has bee...
• How I can to remove specific sequence from a fungu of a plant-fungu interaction of total RNA-Seq data?
  Hi, I am new in the field of the RNA-Seq and I am working with a plant-fungus interaction, but t...
• Phenotype data for Ballgown tool
  Hello I am doing RNA-seq analysis using local server galaxy. I'm following the new Tuxedo protoco...
• RNA-seq data normalisation with housekeeping genes
  Hi there, I just generated a couple of RNA-seq dataset hoping to identify the differentially exp...