Similar posts • Search »

• Read length from HT-Seq
  Hi, Sorry for asking this very basic question. I have paired-end RNA-Seq data. After initial ada...
• HTSEQ count error
  Hello, This is my first rna-seq data analysis project and I am using Galaxy to analyze different...
• RNA-Seq raw count data analysis using GALAXY
  Hi, I have downloaded the raw_readcounts files (.txt files) from an RNA-Seq experiment using GSE ...
• DEXseq count reads tool obtaining only zero counts for all exons
  I'd like to run DEXseq on my RNA-seq dataset to identify any potential differences in exon inclus...
• Query Regarding Rna-Seq Data Analysis
  Hi, I am having a fastq file for my RNA data analysis in my computer. How to make it available f...
• Featurecounts for paired end RNA-seq reads not generating counts
  Hi I have paired end RNA-Seq reads that I aligned to my reference genome using HISAT2 (alignment...
• Counts Of Mapped Reads For Each Gene?
  Hi Jen and other galaxy-users, I am analyzing our RNA-seq data. First, I mapped the RNA-seq da...
• Single cell RNA seq data set alignment
  Hello, I have a single cell RNA seq data (600 cells) and I would like to see the possibility to...
• RNA genes count using HTseq
  Hello: I am new to Galaxy, but based on my understanding of how things work, I mapped some RNA-s...
• Counting Rna-Seq Reads Per Class.
  Hi All, I have been trying to count the number of RNA-seq reads that fall into the various Cuffli...
• When displaying a BAM file in the UCSC browser, will all the data be shown?
  I have recently mapped RNA-seq reads to the sacCer2 genome using bowtie in galaxy. I then filtere...
• Error: htseq-count exceeds memory buffer, Solution: Set sort option on tool form to Yes
  Hello, I am dealing with RNA-seq data and I was successfully able to align my raw FASTQ data to t...
• Normalization of RNA-seq data
  Hi, I am wanting to normalize my RNA-seq data without running a differential gene expression on...
• Realigner Target Creator will not run?
  I have been running the pipeline below to try and call SNPs from RNA-Seq data but have encountere...
• sam to counts in toolbox
  I am trying to run DEseq with my rna seq data.  I am following the tutorial "http://training.bio...
• HELP! My HT seq table counts are in zero
  Hello!! I am running HT seq using my sam files (obtained from bowtie) and the gtf file I obtaine...
• Deseq2 usage Galaxy
  Hello, I am trying to do some differential expression count on RNA Seq data using Galaxy. I did a...
• Finding exogenous transcripts in RNA-Seq bam files
  Hello, What is the easiest way to find and count reads for exogenous transcripts (Cre, GFP, etc....
• DE analysis of miRNA after mapping with miRDeep2 quantifier
  After small RNA sequencing I performed adapter, quality, and length trimming on fastq files. I th...
• Unable to select GTF file from history in featureCounts (Galaxy version 1.6.0.3)
  Hello, I have recently begun mapping Drosophila RNA-Seq data with STAR (in Galaxy), and I am now...
• Error with htseq-count
  When I run htseq-count in galaxy I keep getting errors. The line in the history will look as foll...
• RNA-seq analysis in Galaxy
  I am doing RNA-seq analysis for several mouse samples and I encounter problems during differentia...
• htseq-count error with strand data
  Hi! I am running htseq-count for a RNA-seq and I got this error: Fatal error: Unknown error occ...