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• Lading SRA files into Galaxy
  I have been trying to load SRA files into Galaxy. I have tried using SRA tools, EBI download and...
• parameters and library type for tophat
  hi i haev SRA ids on which i am working. i plan to generate a reference based assembly. 1. i ha...
• Need Help To Split Paired-End Dataset
  I am new to the NGS analysis. I need help to solve this problem. As shown in my previous emial...
• single end sra data
  i ahve single end data from ncbi SRA. how to use tophat on it. how to make datset of it. as galax...
• tophat failure job
  i have run fastqgroomer again on the sra sequences and waiting for it to complete. its result i p...
• (No Subject)
  I am new to the NGS analysis. I need help to solve this problem. As shown in my previous emial...
• No Galaxy Links in EBI SRA - Now what?
  I am trying to import SRA data (SRR1725164) to Galaxy using the Get Data > EBI SRA tool.  Howe...
• Finding gene names from TopHat results.
  Hello, I am trying a build a workflow for RNA-Seq analysis and I want to verify my methods via co...
• tophat job is not finishing
  hi i have run tophat on my sra data(3 files 1.5 gb each) 5 days back.today i found that jobs were...
• Can't use Tophat on Galaxy.
  Hi,  I am having difficulty figuring out the Tophat tool on Galaxy. I was trying to use the Toph...
• fastq splitter problem
  fastq splitter is not working on paired end read for some of my file and produce output file with...
• Do I trim paired end sets first or merge and then trim?
  Hi there, I have a quick question - I have raw 10Gb -sized datasets for my samples. For each one...
• Unzip files on Galaxy
    Hello, I have a fastq.gz file downloaded from SRA that need unzipped. How can I do this on Ga...
• Tophat Paired End Read
  Hi all, I have paired end RNA-Seq reads ( Illumina Hiseq 2000) in seperate files. Before mapping...
• How To Split Paired-End Dataset Of Fastq Format
  I downloaded RNA-seq dataset at FASTQ format from SRA of NCBI. I uploaded the dataset onto Galaxy...
• Get Wig File After Tophat
  Hi: I am using tophat in galaxy to analyze my paired-end RNA-seq data and find out that after th...
• Decompression of sra files and further analysis
  Case: 05508803 Dear Jen, Thanks that you are trying to help me. How can I uncompress the thre...
• Can't map my pairend samples with TopHat after grooming.
  Hello everyone, I need to do TopHat my groomed data files, which are pair-ended. I groomed my ...
• sra data from ncbi
  hi on clicking the link get data- ebi sra i am directed to the ebi website. after finding my sra ...
• Help with downloading files from EBI SRA
  I am new to galaxy and have been trying to figure out how to align RNA-seq reads to a genome in o...
• Look For Wig File
  Hi: everybody I am using tophat in galaxy to analyze my paired-end RNA-seq data and find out tha...
• Tophat errors with alignment summary and insertions data
  Hello, I have encountered a problem after using Tophat. I started off with fasta file of my geno...