Similar posts • Search »

• An error with htseq
  Hello, I am doing RNA-seq analysis using use galaxy.org, I am trying to run htseq-count but in...
• Error with htseq-count
  When I run htseq-count in galaxy I keep getting errors. The line in the history will look as foll...
• Modifying GFF files
  Hi: I am working with a GFF file, which is missing 5' UTR annotations. I thought I might be able...
• 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...
• Downloading GFF files from NCBI
  Hi: Can someone help me figure out how to import a genome from the NCBI website into Galaxy in a...
• How to create GFF file for HT seq
  Hello there, I am dealing with some RNA seq data and was trying to run the raw data in bam file f...
• RNA-seq analysis in Galaxy
  I am doing RNA-seq analysis for several mouse samples and I encounter problems during differentia...
• Blank Cufflinks output
  Hi! I am conducting an RNA-seq analysis with Saccharomyces cerevisiae-derived data. In my workfl...
• HTSEQ count error
  Hello, This is my first rna-seq data analysis project and I am using Galaxy to analyze different...
• Header on Deseq2 result files
  I am using Deseq2 on galaxy for RNA-Seq data analysis. Earlier when I used to do differential exp...
• 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...
• Biological Replicates on galaxy/ DeSeq analysis
  Hi, I am doing RNA seq analysis and I want to preform Deseq. I have 2 replicates for each condit...
• How to map RNA-seq reads to an annotated reference genome in GFF format
  Hi, I am trying to map RNA-seq reads to a GFF annotation file I created using tophat2 through Ga...
• HT-seq count does not recognize "gff" annotation dataset == assign GTF and consider an alternate annotation source
  Hi all I have been using galaxy tutorial for RNA-Seq of Drosophila malanogaster. I have done bw...
• HTSeq-Count Error on Cloudman
  Hi I'm working on Cloudman doing RNASeq transcriptome analysis. I've made BAM file using TopHat2...
• 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...
• htseq-count no read align
  Hi I am trying to get raw count of mapped read, so I am running htseq-count on tophat accepted h...
• 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...
• What to do with Cuffquant .cxb files
  I would like to get a raw RNA-Seq counts matrix from the results of the Tophat alignment to a ref...
• HTSeq-Count: Maximum alignment buffer size exceeded while pairing SAM alignments
  Hi I'm working on Cloudman doing RNASeq analysis. I am trying to use htseq-count tool for gene q...
• regarding gff3 file for rna seq analysis (tuxedo workflow) in human
  I want to analyze the rna seq data using tuxedo work flow. i have two replicates for control and ...