Similar posts • Search »

• HISAT2 - no reference genome available
  HISAT2 does not have any options for a built-in reference genome. I need mm10. Source for the r...
• HISAT2-reference genome not available in a local -- data must be installed first
  Hi everyone, When I'm trying to use in my local galaxy HISAT2 for mapping the reads I have an inf...
• HISAT2/TOPHAT alignment to a Rabbit Genome
  Hello, I have multiple samples of human stem-like cells that were retrieved from an animal model....
• Arabidopsis genome to HiSat2
  Would it be possible to get the Arabidopsis thaliana genome pre-loaded into HISAT2 on Galaxy Main...
• Zebrafish Genome on HISAT2
  Hello, The reference genome for zebrafish (D. Rerio) is missing from Hisat2. Could this be added...
• Adding a reference genome to a local Galaxy
  Hoping to find some Galaxy Dev team experts. I am trying to add hg38 to the HiSat2 tool so that t...
• hisat2 index issue (I think)
  Hi all, I used the hisat2 index builder data manager to create a hisat2 reference for a local ga...
• HISAT2 reference genome unobtainable
  Trying to use HISAT2 - no reference genomes are available, how should I report this? Many thanks,...
• Poor overall alignment rates
  I am having problems with the alignment process for some data that I obtained through NCBI GEO da...
• Add reference genome
  Hi, Is it possible to add Arabdiopsis as reference genome to the build in set for the hisat2 pro...
• No reference genomes on galaxy hisat2
  I am trying to do rnaseq analysis but galaxy doesn't seem to have any reference genomes on hisat2...
• Add cavefish genome
  Is it possible to add the cavefish (Astyanax mexicanus) genome to the set of built-in reference g...
• Error: htseq-count exceeds memory buffer, Solution: Set sort option on tool form to Yes
  Hello, I am dealing with RNA-seq data and I was successfully able to align my raw FASTQ data to t...
• HiSat2- over 50% of reads failed to align
  Hello, I am using Hisat2 to align reads to a reference genome (mm10). However, over 50% of read...
• HiSAT2 alignment to GRCm38? in Galaxy -- where to find mm10 reference annotation
  I am doing an RNA-seq experiment and I ran HiSAT2 with the mm10 reference genome. Then in order t...
• Which reference to map against for RNA-Seq using HISAT2
  Hi all, I am trying to determine differential expression between two test conditions - in rat. T...
• SAM to BAM of samtools: It can't find built-in reference genome.
  as the title! I installed data manager of samtools index builder. What a strange affair! SAM_to_B...
• Problems loading/using custom genome dataset for Hisat analysis
  Hi, I am trying to load from ENA the genome dataset of Carnegiea gigantea into HiSAT2 analysis f...
• bowtie1 missing built-in genome indices
  Hi, I need to install bowtie1 for some reason.  I installed package_bowtie_0_12_7 and bowtie_wrap...
• RNA-star: splice junction
  Hello, I am new to RNA-seq data. I am using the built-in index and using the reference genome wi...
• Is HISAT2 working in GALAXY?
  I always can not choose from the build-in reference genomes. Anyone has the same problem here? o...