Similar posts • Search »

• Best mapping algorithm
  What is the best mapping algorithm to use? My reference genome is about 70,000 sequences, each 2...
• Adding Genome to the list of reference genomes
  Dear Sir/Madam, Would you kindly add the Glossina morsitans transcript from this link https://www...
• Default for "reference_source_selector"
  In the situation of a custom tool with an xml definition, is it possible to specify the default v...
• How to add a genome indexed at https://usegalaxy.org to IGB (when it is not already natively included)
  Hello, I have been using Galaxy Main to map WGS data from E. coli. I have tried several mapping ...
• Using BWA with Illumina data and metagenomic "reference genome"
  Hi, I'd like to try using BWA to align Illumina reads to some contigs a collaborator made from my...
• Bowtie And Bwa Queue'D Up For Hours
  Does anyone know why these mapping programs are taking so long to start running? Is there a prob...
• Parallelizing An Ngs Mapping Workflow
  Hello, I'd like to use Galaxy on our local beowulf cluster for NGS workflows. One typical use ca...
• TopHat error only on one dataset?
  Hi all, I've run my RNA-Seq data through tophat for the rn5 genome and it worked as expected. I...
• sam to bam - Galaxy version 17.01
  Hi All First of all I am not a bioinformatician, I'm looking at someone else's test workflow. I ...
• built-in genome for HISAT2 not available
  I am trying to map fastq to mm9 genome using HISAT2. But the drop-down list of built-in genomes i...
• Galaxy Reference Genome
  Hello, Galaxy Main 1.) I am having trouble adding annotations to my Tophat and Cufflinks tools....
• Small number of reads mapping to consensus
  Hi all, I aligned my single-end illumina reads with bwa aln to the human mitochondrial reference...
• BWA for Illumina using custom genome
  Hi I have uploaded the fasta files (3 chromosomes) of my genome of interest. I downloaded FASTA ...
• About Mapping Quality
  Hi all, I used TopHat to map RNA-Seq reads to genomes. In the output (.sam) file, the value of s...
• Alignment and consensus from mapped reads (Ion PGM - Ampliseq Custom Panel)
  I have an Ion Torrent Ampliseq Custom panel of 28 Culex genes that I have run on our Ion PGM. It'...
• RNA genes count using HTseq
  Hello: I am new to Galaxy, but based on my understanding of how things work, I mapped some RNA-s...
• Mapping (with HISAT2 / Bowtie) on custom genomes yields always 0 matches
  Hi, I've the following problem. I'm using HISAT2 and Bowtie. I'm using a gene with 1200 nucleoti...