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• Getting other supported reference genomes for NGS plot on local galaxy
  Hello, I have downloaded the gz tar of the ce10 build for ngs plot but I am not sure how to get i...
• [ngs.plot] NGS plot script freeze on local galaxy
  Dear All, we are trying to use NGS-plot on our local docker-galaxy-stable instance. The script ...
• Finding a public galaxy instance with a specific tool
  Hi, I've had this question several times over the last couple of years - is there a way to find ...
• How to install "NGS: Indel Analysis" tools
  How is it possible to install `NGS: Indel Analysis` tools Filter Indels for SAM Indel Analysi...
• How to know if mapping to reference genome was succesful?
  Given a set of BAM files for single-end reads just mapped with BWA tool, how can I have an overvi...
• Papillon: a python alternative to plot/heatmap Galaxy RNA-seq data
  Hello, I learned how to do a RNA-seq using Galaxy, without use the terminal. But then, we you wa...
• plotProfile/plotHeatmap - How to change the file names?
  I would like to compare H3K4me3 ChIP peaks of several samples at TSS. Therefore, I used "compute...
• Volcano plot from Tool Shed?
  Hi, I'm interested in making a volcanoplot, scatterplots for differential expression (for example...
• How To Show Sequence Length Data
  Hi, there I'm new to this field and have a question when using Galaxy. I have RNA sequence data....
• plotCorrelation and pandas error
  Hey I am using plotCorrelation and I get the following error File "/home/pk3/galaxy/data...
• Input/Output directory in local Galaxy installed on Windows VMBox
  Hello! I'm just a beginner and quite new to NGS data analysis. I successfully installed the Gal...
• sum all but first 500 lines
  I'd like to make a genome coverage distribution plot using the X-Y plotting tool X = coverage de...
• Need help with Circos plotting of snps on Galaxy
  Please help me to make a Circos plot of snps against the reference genome on Galaxy. I have a bed...
• Reference Genomes At Local Instance Of Galaxy
  Hi, I have just installed a Galaxy instance at my local machine and uploaded some sequence data ...
• de Novo assembly
      Hi, I am new to galaxy and its tool shed. I have been looking for genome assemblers and ca...
• Request For Showing Output Plots In Galaxy Frame
  Dear Galaxy team, My name is Matthew Iyer and I am a Bioinformatics PhD student at the Universit...
• Adding A Reference Genome
  Greetings, My apologies for a what is a naive question, but I would like to map NGS reads to a g...
• Making PNG figures from plots in R from toolshed (without X11)
  Hi everyone, I'm encountering problems when I want to export a plot from R into a PNG, using sev...
• How to install ANNOVAR (annotation software) manually on a Galaxy cloud instance?
  How to install ANNOVAR manually on a Galaxy cloud instance? Is it possible only via a toolshed?
• Galaxy cummeRbund fails to identify sample name for X and Y axis for scatter and volcano plot
  Hello, I have cuff diff sqlite db for 2 samples and I wish to visualise the result using galaxy-c...