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• inquiry about the reference genome
  When i wanted to analyse the result of the WGS for a c.elegans mutant ,i found that i do not know...
• Reference Genomes do not exist in local Galaxy's Bowtie2
  Want to use reference Genome hg19 for Bowtie2 from a local instance of Galaxy. The pulldown for s...
• why do Galaxy have a reference genome of sheep?
  Hi: I am analyzing RNA-seq data of sheep using Galaxy. But I can not find a reference genome abou...
• 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...
• inquiry about the reference genome and SNPs
  Dear Sir/Madam: How do you do?I am a new user of Galaxy.And i have been exploring how to ana...
• how to upload a reference genome (NCTC8325)
  I am struggling to upload the reference genome of NCTC8325 to the system from https://support.ill...
• Installing standalone Galaxy with reference geneome
  Dear all, newbie question here.  So I installed Galaxy on my linux box.  When I try to upload a ...
• Cannot select the S. cerevisiae reference genome (sacCer3) for "Map with Bowtie for Illumina" in a saved workflow
  I have a saved workflow involving a Map with Bowtie for Illumina step in which I want to map read...
• Adding reference genome to Galaxy
  Hi, I want to add reference genome(hg19) from UCSC main table to my Galaxy account,how can I do t...
• RNASEQ analysis on genome not in database
  I need to do RNA seq analysis on viral genome that is not in database. Have mapped with Bowtie t...
• Getting all unmapped reads
  I have a fastqsanger dataset from an RNAseq experiment, and I am trying to remove contaminating h...
• Need to GFF file for RNA-seq analysis
  Hello, I am doing RNA-seq analysis using use galaxy.org, I want to run htseq but I do not know...
• SAM-to-BAM (NGS: SAMtools)
  I am trying to convert my SAM file to BAM file and I want to use the built in genome, but there i...
• Custom reference genome for RNA-seq
  I am beginning to analyze some RNA-Seq data and having some difficulties with the custom referenc...
• 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...
• How to add custom reference genome
  Dear Sir, I am using a shared TUXEDo protocol for RNA seq analysis for bacteria. I am not able to...
• How To Use User-Defined Reference?
  Hi everyone, I am wondering if I can use user-defined reference instead of selecting the refer...
• export consensus sequence
  Hi, I have been using Galaxy.org for a couple of months now. It is such a powerful platform. I ...
• 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...
• Generation of reference using CLC Genomic Workbench
  Hello everyone,  I  have to analyse the transcriptome data in order to identify differentially e...
• How do I get ribosomal RNA counts from featureCounts of my bam files?
  Hi, I used HISAT2 to align more RNAseq fastq files and then featureCounts to count my features. ...
• How to add and use a custom reference genome
  Dear Sir or Madam, May I know how to add some other genome information for custemerized analysis...
• built pvulgaris genome
  Hi I'm struggling with the SNP discovery. I've tried to add the reference genome to run naive va...
• Reference Genomes At Local Instance Of Galaxy
  Hi, I have just installed a Galaxy instance at my local machine and uploaded some sequence data ...