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• How to judge the quantitativity of ChIPSeq?
  Hi, I have now been through my ChIP-Seq analyses with some success using the Galaxy platform up ...
• visualization of mapping
  How do you visualize the sequence after you mapping it so you can do further alignment ?
• How can I merge two single-end mapping data
  Hi, I am analysing my ChIP-Seq data which generated by paired-end sequencing. But due to some ex...
• How to calculate the Average Insert Size after mapping the reads to the reference genome using BWA
  Hi everyone, Having mapped the reads (paired-end) to a reference genome using BWA, I am trying t...
• Questions On Cuffdiff Output And Browser Visualization
  I would really appreciate someone's input on some issues I am having with my cuffdiff output for ...
• Trouble Visualizing Data
  Hi Lindsey, I see a few potential problem areas here. Double check these things: 1. when upload...
• Number Of Mismatches Allowed In The Initial Read Mapping
  Dear All, I tested how to set the "Number of mismatches allowed in the initial read mapping" a...
• trinity statistical analysis
  Hi I am new trinity user at usegalaxy. I used trinity to assemble my NGS data and received fasta ...
• Bowtie2/Samtools files are not visualized with Trackster: Fatal error Exit code 255 ()
  I am trying to map 8 paired-end reads on to the same reference custom-build genome. Each of these...
• Where can I find the Trinity statistics?
  Hi, This is maybe a stupid question, but I am new to RNA sequencing and the Galaxy environment -...
• Evaluating Tophat'S Results
  Hi, I ran TopHat on Galaxy for my RNA-seq data. I want to analyze TopHat's output files, such as ...
• RNA seq peaks
  how to visualize RNA seq peaks (what format) between different conditions in UCSC genome browser....
• 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...
• Cufflinks Visualization
  Hi all, can anyone explain me wh how can I visualize cufflinks outputs in trackster? galaxy keep ...
• Mapping Illumina Reads Using Lastz
  Hello, I am trying to map metagenomic Illumina reads to the reference genomes. I used Galaxy LAS...
• Need to Expand Visualization
  Hello,  I recently used tophat2 to align two reads to the rn4 genome. I went through trackster...