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• Does Galaxy NGS tools support targeted sequencing analysis?
  Glad to see Galaxy now provides support to do EXOME-seq analysis from FASTQ to Variant calling. K...
• Bacterial Sequence for Variant Analysis
  I am analyzing paired-end data for bacterial genome and have done the following steps: *FAST...
• Question about Galaxy sequence analysis: EBI SRA, NCBI, and dbGap
  I am using Galaxy for a class I'm teaching and came across a question...I chose Get data and then...
• Use whole genome or cDNA sequences for RNAseq alignment
  Hello,    I'm working on my first RNAseq analysis, and I'm unsure of how to proceed with my TopH...
• Analysis of paired end illumina sequence.
  Hi everyone, I am  new in NGS.  I would like to filter and identify V4 region from raw paired en...
• extract fasta file from Galaxy
  I am trying to extract fasta file from galaxy after cuffcompare analysis which gave me combined t...
• Confusion regarding gffread tool in Galaxy
  Dear All, I am new to analysis of RNA sequencing data. I am looking to map small RNA sequencing ...
• pipeline for DNA-seq analysis
  Thanks for all your help. Finally I got the data uploaded on the Galaxy. As suggested there was a...
• ChIP-Sequencing data analysis
  Hello, I am trying to analyze ChIP-Seq data and extract enriched motifs from it. I have done the...
• Data analysis workflow in Galaxy
  Hello to everyone, I am quite new in bioinformatics and I need little help. I got task to implem...
• HG38 .gtf file
  Hello. For practise, I am running an RNA-seq analysis on some of the RNA-seq data from Illumina ...
• Data Upload Question
  Hi, I am new to Galaxy and trying to upload some data files. The size of my compressed file is a...
• 16S sequencing analysis
  I would like to know if it possible to use data from Next-gen platforms for 16S rRNA sequencing c...
• RIP-SEQ or RNA-SEQ
  Hello, I am new to galaxy as well as RNA seq analysis. Although, I did not perform RNA seq, I am...
• sra data from ncbi
  hi on clicking the link get data- ebi sra i am directed to the ebi website. after finding my sra ...
• Fwd: Exome Sequencing Analysis
  Hello, My name is Johnathan Cooper-Knock, I am a clinical fellow based at the University of Shef...
• Analysing Pooled Data With Freebayes
  Hi, I am new to this and I hope someone can help. I have pooled sequencing data that I am trying...
• RNA-Sequencing : unable to view in UCSC
  Hi, I had a couple of samples that I processed,QC, trimmed and ran them on TOPHAT. After that wh...
• cDNA in TopHat
  Hello: I am new here so first, nice to meet to all of you. I am a PhD Student and I have a que...
• trimming adapter sequences. is it necessary?
  Hi, I am a beginner to chip-seq analysis using Galaxy. I have received my data and did fastqc qua...
• when is repeatmasker used in data analysis pipelines?
  Hi everyone, I am totally new to sequencing data analysis, and I apologize if this question has ...
• Problem with bam files for exome sequencing analysis
  Hello everyone, I have one problem at the very beginning of the exome sequencing analysis, prob...
• Galaxy-Fetch Sequences-How to extract genomic DNA from Fasta file?
  I am trying to extract Virus genomic DNA sequence using Fetch sequences tools. The source of geno...
• How to count HiSeq sequences at Galaxy?
  Is there any way to count transcripts?  I am now grooming and filtering my HiSeq data.  I would l...
• 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...