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• FASTA sequences not blasting.
  Hello Great Minds, My FASTA sequences ( in tabular format) are not blasting. I downloaded the...
• Metadata Error When Using Megablast
  Hello, I am attempting to megablast a FASTA file containing ~45,000 records of 100nt each agains...
• gtf file error
  Dear all, My reference genome is Duck, not index in Galaxy reference genome. So i downloaded fast...
• how to get fasta sequences of cufflink assembled transcripts
  hi i request you to help me in getting the fasta sequences of assembled transcripts by cufflink....
• BWA for Illumina using custom genome
  Hi I have uploaded the fasta files (3 chromosomes) of my genome of interest. I downloaded FASTA ...
• Custom reference genome for RNA-seq
  I am beginning to analyze some RNA-Seq data and having some difficulties with the custom referenc...
• Tool to download fasta for accession id list
  I have list of accession ids: eg. ABD26882.1, ABF53376.1, ABG05503.1. What Galaxy tool should I u...
• Fasta Files from FTP sites
  Hi, I have used FTP to download the mouse genome from NCBI, Ensembl, and UCSC. When I navigate t...
• Error executing tool: maximum recursion depth exceeded while calling a Python object
  Hi, I'm using a custom genome (in FASTA format) which I downloaded from EupathDB.org. I used User...
• Will not clip a fasta format file
  Hello, We used high throughput screening of small DNA fragments (about 100 base pairs long). The...
• Can'T Download Big Files
  Hello everyone, We have galaxy-dist-17d57db9a7c0 installed on our Mandriva 2009 64bit. There ar...
• Extract Genomic DNA using coordinates from a gff file
  Hi, I have been extracting genomic sequences, using "Extract genomic DNA" from "Fetch Alignment...
• HISAT2 and Rat annotation database
  For HISAT2 I am using the Rat fasta annotation file. Is it supposed to be any particular one? A...
• How to convert Bed, or GFF3 files to fasta?
  Hello everyone, i am new to the bioinformatic world, and i am trying to do a phylogeny with a gen...
• CuffMerge Fails to accept hg19 human Sequence Data
  TopHat 2.1.1 and Cufflinks appear to work properly. After the tool cufflinks, the next tool in m...
• Move Data Between Histories?
  Hi, I was wondering if there was a way to easily use (or move) data between different histories....
• Where to get SNPs and Indels?
  I downloaded some files from Broad Institute but Realigner Target Creator won't work with these f...
• S.cerevisiae reference genome from USCS--2bit extraction issue
  I extracted the SacCer3 (S.cerevisiae) reference genome sequence from the corresponding 2bit file...
• Problem with custom reference genome
  Dear all, on our local galaxy-docker-stable instance I would like to include additional referenc...
• uploading fasta files
   how can I upload fasta files of different psbA  genes ? how can I measure the length ?  
• Unable to fetch the sequence from human genome using start/stop coordinates
  Hello, I am attempting to generate a FASTA from MACS2 generated summits bed file using Galaxy's...
• filter by fasta ids
  Hi. I am new to using Galaxy and I'm trying to download useful tools. I have a set of masked file...
• Downloading Reference Sequences And Other Questions
  Hi I have a few questions 1. I am trying to use Bowtie to map my data using a reference genome. ...