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• Velvet in usegalaxy.org
  How can i use velvet assembler in usegalaxy.org for de novo whole genome assembly. ?
• expression of transgenes
  I work with Drosophila transcriptome and sometimes I need to evaluate expression of artificial tr...
• De novo assembly of a genome sequence
  I am new to the Galaxy. Can you do a de novo sequence asembly using the Galaxy? Thanks.
• Problem Report!!
  Dear Galaxy member, I'm sending you this e-mail because of a problem I have in fetching sequence...
• use HIV as reference genome
  hi, i have 4  read outs that cover the whole genome of HIV sequence. i want to align them to for...
• MSA and phylogenetic tree for WGS data of mammalian species
  Hiii.... i want to do multiple sequence alignment to get format compatible for constructing a phy...
• assembly of genomic DNA reads
  Dear All, I have have query regarding assembly of sequencing reads. Is there any technical diff...
• bacterial whole genome analysis
  good day, how do i upload my fastq files to galaxy server to perform bacterial whole genome anal...
• BAM file manipulations
  Hi I have made a whole assembly of RNA seq data using Trinity. The assembled file generated has ...
• De Novo Assembly
  Hello, I would like to know if Galaxy can do de novo assembly without a reference genome. Thanks....
• Extract Genomic DNA tool behavior
  Hi I have downloaded RNA_seq data as fastq files and aligned these against FASTA sequences as re...
• Quick Question About Cuff Compare
  Hi! Just a quick question.... I am trying to use cuffcompare for human data and want to use a Se...
• Troubles in de novo assembly of an insect genome
  I need to assemble an insect genome. The genome size is around 500Mb. I have performed genome seq...
• How get Cancer WGS for analysis in Galaxy
  Hi,   I want to do some analysis on Whole Cancer Genome data. 1) Can I get the sequence form s...
• Could you add sheep reference genomes into the database?
  Could you add reference genomes into the database? Ovis aries (sheep) Lineage: Eukaryota[1961]; M...
• 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...
• GATK Select Variants Reference Genome
  Hi, I'm trying to use GATK Tools Select Variants on VCF files of whole genome sequencing data, ...
• NCBI genome to Galaxy
  I am trying to download Brachypodium distachyon strain Bd21 chromosome 2, Brachypodium_distachyo...
• Another step to make Trinity output usable with Blast
  I have an output from Trinity that looks like an assembled genome. When I use Blast to check for ...
• Coverage for specific genes and exons
  I am using a whole exome sequencing dataset to look for potential pathogenic mutations. Overall,...
• Which file must be used for assembly?
  I want to assemble a genome using de novo assembly and I am very new to it. The Illumina sequenci...
• FastQ sanger sequences -ends quality trimming
  Dear all , I'm very naive regarding bioinformatic tools. I need to trim my sanger sequences to re...
• De novo transcriptome assembly and reference guided transcriptome assembly
  Hi, I have four related questions about de novo RNAseq data analysis. I have 4 RNAseq data obtai...
• De-novo assembly of a bacterial genome
  I am trying to assemble a bacterial genome of length 8Mb in **orione.crs4.it** . I could successf...
• Finding Open Reading Frames And Corresponding Genes
  Hi I am sequencing a bacterial genome and have assembled my Illumina reads (40 bp single) using b...