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• Creating consensus sequence after mapping
  Greetings, I would like to know how to create contigs, or DNA consensus sequence after mapping t...
• How to create and run a pipeline using BioBlend and Galaxy API?
  I need to build the following pipeline: 1. Upload an SRA file from a remote FTP server (with an...
• Genome mapping with Bowtie 2
  Hello,   I would like to map my data against Mycobacterium leprae TN genome but it is not in th...
• How do I add my own reference genome for mapping RNA-seq data
  How Do I Add my own reference genome for mapping RNAseq data? Below is the link for the referenc...
• 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...
• 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 visualize mapping statistics
  Hello, after I perform Bowtie alignment how do I visualize mapping statistics?
• Toolshed tools, create tool data file on installation
  How can I setup my custom tool on our local running version of the toolshed to automatically crea...
• libraries and mapping
  sir/mam, can u plz tell me how to add data in data libraries in galaxy? and then how to prcess it...
• How To Sort Mapped Data?
  Hi everyone, I am working on RNA-seq data. First, I mapped the reads to the reference transcri...
• Workflow to clean data prior to variant call
  Hi,  I would like some advice on the workflow I'm using. 1- I have WGS data from bacteria, I've...
• ChIP seq : How to map sequencing data that one base is not called?
  I did ChIP-sequencing. During sequencing process, one base was not called due to a problem at the...
• FASTA consensus from BWA-MEM mapped MinION data?
  Does anyone know how I can I generate a FASTA consensus from BWA-MEM MinION data using Galaxy?
• heat map generation in cummeRbund
  hello, i am not able to generate heat map on my data in cummeRbund. it shows the following error...
• Reference Genome how does it validate
  I have a very basic question. We map the m-RNA sequence cDNA with the reference genome and then b...
• Bwa Mapping With Index File From History
  I have a Hi-seq Single end data and want to align it to a viral genome and have fasta file of vir...
• mapping the genome
  How can I know how many reads are mapped? I used the tophat tool. and how can I know how many r...
• Trackster Error Chrom/?.Len , No Such File Or Directory
  I have my own genome fasta file containing 1 chromosome with a modified header so that it looks l...
• Creating galaxy pages with Immport Data
  I want to create a page through the galaxy and import some gene expression and other data which I...
• Creating Trackhub and uploading data from Galaxy to CyVerse
  Hi, I want to create a trackhub for displaying all my data in UCSC Genome Browser. As suggested ...
• How to add a genome indexed at https://usegalaxy.org to IGB (when it is not already natively included)
  Hello, I have been using Galaxy Main to map WGS data from E. coli. I have tried several mapping ...
• 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...
• SNP data for population structure analysis
  Hi. How can I create the gd_ped file needed for population structure analysis (PCA, population co...
• Need Help
  Dear Galaxy Team, I have successfully installed Galaxy and have couple of questions. (1) How to...
• Why are the SOLiD mapping functions gone?
  I noticed that under the NGS mapping section, all of the SOLiD functions are gone. Are they only ...