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• Convert genome coordinates from hg38 to hg19
  I think I have done this before and it worked perfectly, a few weeks ago, but somehow I can't get...
• Content of the built-in hg38 genome annotation available in Featurecounts
  Hello, After executing featureCounts on my BAM file using a built-in genome (hg38) from Galaxy ...
• featureCounts gives extreme low counts on highly expressed genes
  I mapped paired-end sequencing with RNA-STAR and got the BAM file. I then use featureCounts to co...
• using SAF gene annotation file in featurecounts
  Hello! I'm new to Galaxy and was wondering if I could get some help with using the featurecounts...
• Locally cached annotation not available for featureCounts
  Hi all, For my RNAseq analysis, I am using the featureCounts tool to measure gene expression fr...
• FeatureCounts from GUI galaxy
  I ran featurecounts from Galaxy GUI – it didn’t recognized genomic annotation UCSC from history. ...
• Featurecounts built-in annotation hg38, hg19, mm10, mm9
  "Parameter genome requires a value, but has no legal values defined" stop me from execution. whic...
• Featurecounts' added built-in annotations
  Not a question: Just to say thanks for adding the 'built-in' annotation files under featureCounts...
• featureCounts is always running and never finished
  Hello, I am practicing this tutorial, https://galaxyproject.org/tutorials/nt_rnaseq/ but the feat...
• featureCounts doesn't recognize Rat annotation file in history, what am I doing wrong?
  Dear Experts, I use Htsat2 output file for running feature-counts, but when I set up the run Gala...
• any update on the issue "An error occurred while getting updates from the server" ?
  Hi, Galaxy admin This seems to be a recurring issue as I've seen many people posted their questi...
• galaxy says I'm using 100% of my quota- but I know I am using around 30%
  Hi, I was using Galaxy a couple of weeks ago and I was then using around 30% of my quota. Today, ...
• 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...
• job run error in cufflink
  Dear sir, i have run my job from last two weeks ... but my job does not execute ... plzzz help m...
• featureCounts jobs will not submit unless input BAM(s) have the "database" metadata assigned
  Hello, I am trying to run featureCounts on my BAM file using a built-in genome from Galaxy. I wro...
• Bowtie don't load paired end data
  Hi, I'm new in the NGS technology. I have a problem with Bowtie paired end loading data. A few we...
• 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...