Similar posts • Search »

• 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...
• Genome build accession for Galaxy build-in genomes
  How can I find exact genome build (NCBI accession number, like GCA_000001405.17) for build-in gen...
• GTF file is not recognized
  Hello, I am trying to align my hits with a GTF file that I upload from Ensembl, however it is no...
• Run Tophat In Galaxy
  Hi how can I specify a GTF gene annotation file when running tophat to guide the alignment to hum...
• TopHat aligning with ensembl in Galaxy
  I'm using the Galaxy interface to analyse RNAseq data. I've successfully aligned using the defaul...
• gtf file for chicken
  Dear all, Where i can download gtf file of chicken (Gallus Gallus) for reference annotation step ...
• 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...
• Why won't Galaxy recognise uploaded hg19 .fasta.gz file?
  Hi. I'm doing RNA-seq analysis for the first time and want to upload the hg19 genome from 1000 Ge...
• converting .gff file to .gtf
  I am using galaxy rnaseq workflow. I have my annotation file in .gff format, however it needs the...
• Trouble With Rnaseq Analysis
  Hi everybody, I am trying to analyze the differential expression between two RNAseq samples. But ...
• HiSAT2 alignment to GRCm38? in Galaxy -- where to find mm10 reference annotation
  I am doing an RNA-seq experiment and I ran HiSAT2 with the mm10 reference genome. Then in order t...
• zero cuffdiff FPKM values SusScrofa
  Good morning, I am a beginner in RNAseq Galaxy interface and I have a problem with all zero FPKM...
• Is the RNA STAR aligned file already been sorted?
  Also, I see unknown contigs that are not present in my chosen reference hg38 gtf file (Gencode.v2...
• Cuffquant errors after using HISAT2
  Hi, I have 2 sequence reads archive and I want to do some RNA-Seq analysis on them. Archive 1 :...
• CUffDIFF fatal exit code Error 139
  Hi My cuffdiff run does not continue , it stops and says  FATAL error exit code 139(),  My functi...
• How To Add Alignment To The Maf
  Hi galaxy, I'm trying to know the coding potential of my RNA-seq transcripts by phylogeny analys...
• unable to load zebrafish GTF/GFF3 files from current history into any of the RNA analysis tools
  I am analyzing zebrafish RNA seq data, I am able to upload the fastq files, use trimmomatic, alig...
• RNA-seq analysis in Galaxy
  I am doing RNA-seq analysis for several mouse samples and I encounter problems during differentia...