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• Galaxy for alignment for genomes of bacterial species
  Galaxy can be used for alignment for genomes of bacterial species or not?? How genome sequence ca...
• Bacterial Metatranscriptomes
  Hi everybody, I am trying to perform metatranscriptomic analysis on gut samples. Whereas the host...
• 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...
• bacterial whole genome analysis
  good day, how do i upload my fastq files to galaxy server to perform bacterial whole genome anal...
• Create and extract consensus sequence after initial genome mapping using a custom genome
  I have aligned fastq sequences (from an insect vector) to a small bacterial genome of 1.2 mb (as...
• How to add a bacterial genome to Galaxy database?
  I have my ChIP-Seq data on Galaxy but can't map it because the bacterial genome that I am working...
• Getting Sequences For Multiple Species From Ucsc
  Hi all, I am wondering if there is a way to download sequence information from UCSC into Galaxy ...
• Convert genome coordinates between assemblies and genomes (Galaxy Version 1.0.5) aka LiftOver
  I have two related bacterial genomes of same species - different subspecies. I want to map the co...
• Stitch MAF blocks
  This is about the module "Stitch MAF blocks" which can be found in "Fetch Alignments" in Galaxy. ...
• Need help with "Map with Bowtie for Illumina" tool
  Hi, I mapped my illumina sequences with one reference bacterial genome and got bam file. Does any...
• Bacterial RNAseq in Galaxy
  Is there a workflow to follow alignment of bacterial RNAseq. I want to align FAStq file and then ...
• Utilize text manipulation to remove poor alignments in MAF?
  Hello all,   So I am attempting to find covariance and long story short I am attempting a 28way...
• Metatranscriptomic reads alignment and assembly
  Hello. I have a set of metatranscriptomic Illumina paired-end reads. I need to align them agains...
• Bacterial Sequence for Variant Analysis
  I am analyzing paired-end data for bacterial genome and have done the following steps: *FAST...
• Variant annotation for bacterial genome
  I have a vcf file, and I wish to  identify whether SNPs cause protein coding changes and the amin...
• Set unified genotyper for bacterial genomes
  Hello, could someone tell me how to set the ploidy of unified genotyper to 1, to run it for bact...
• Masking reads that map to two genomes in galaxy
  I've gotten RNAseq data (paired end Illumina) that is from two different species. I've used Topha...
• accessing MAF alignment data on Galaxy
  Hi, I'm trying to perform analysis on MAF data on the public instance of Galaxy, but I'm unable ...
• Taxonomical similar bacterial genomes donot clutser together in dendrogram
  The 7 metagenomic assemblies of different species of Azolla fern was the raw data i had. The aim ...
• 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...
• Fetch Codons And Amino Acid
  Hi all, I am a new Galaxy user and I have searched the mail list, looking for the answers to my ...
• How To Add Alignment To The Maf
  Hi galaxy, I'm trying to know the coding potential of my RNA-seq transcripts by phylogeny analys...