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• Fetching Promoters
  Hello, Is there a way to fetch the promoter regions for homologous genes from different species....
• dm6 multiz MAF gives smaller than expected
  Hi, Maybe a basic question. I am trying to get the homolog aligned sequences for a huge gene in...
• Fetch alignments using stitch Gene Blocks but all the gene-sequences are in '--------'
  I was using the GALAXY project (https://usegalaxy.org/) online server, the section is Fetch align...
• [Fwd: Re: [Genome] Chimp Assembly 2 Pairwise Alignments]
  Hi there, further to the query below, I'm trying to follow the steps outlined in the email below ...
• Flanking regions from SNP list
  Hello  Using the RNA seq data and have performed de novo assembly with non-model species. I have...
• Extract MAF for whole genome and some species
  Hello, I am trying to obtain the whole genomes for some species with Galaxy. I have found the ve...
• 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...
• One Question About The Genome Coordinates When Using Fetch Sequences
  Hi, I have one stupid question. The coordinates of the region chr1 2351533 - 2351843 from UCSC (...
• Search For Tf Binding Site Patterns In Galaxy
  I am trying to come up with a nice workflow/tutorial for the use of Galaxy to search for Transcr...
• Help with an simple workflow (annotation)?
  Dear all, I need a recommendation about what tools to use in a workflow for annotation of sequenc...
• How to deal with repeated genomic regions in BWA ? (How to generate a BED file from the XA tags)
  Hi, I am using use "BWA for illumina" on galaxy main server, I am looking for the frequency of re...
• How to assign a single species per sequence in Megablast
  Hello, I am investigating parasite (nematode) communities, using the ITS-2 for identification. M...
• Extract Alignment For A Set Of Genes
  To Whom It May Concern, Sorry to bother you with what is likely a fairly simple problem, but I h...
• Trouble In Extracting Species On Maf Imported From Ucsc
  Hi, When I import a multiz46way maf alignement from UCSC, if is is a whole chromosome, then when...
• Counting number of times multiple defined values appear in the dataset
  I have gotten SNP data on a number of regions via UCSC genome browser. I have assigned all SNPs w...