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• Problems with leftover tools in Galaxy
  Hi, I'm experiencing problem with liftover tool in Galaxy. After uploading an interval file, when...
• Galaxy: Genomic Intervals to strict BED Conversion
  Hello: I'm new to the forum and Galaxy/bioinformatics. In the last two months I've been followi...
• Does Galaxy Support The Ucsc Data Points Format?
  Hi everyone, I'm wondering if galaxy understands the UCSC data points format (for example, the o...
• Featurecounts built-in annotation hg38, hg19, mm10, mm9
  "Parameter genome requires a value, but has no legal values defined" stop me from execution. whic...
• Do I Need To Specify The File Format When I Upload Datasets Using Ftp Method?
  Hi Everyone, When I upload my datasets onto my history via FTP method (using FileZilla), do I ne...
• Get fasta file from peak called BED file to do Motif analysis
  Hi all, I have some called peaks in BED format and would like to extract the sequences in a FAST...
• How To Use User-Defined Reference?
  Hi everyone, I am wondering if I can use user-defined reference instead of selecting the refer...
• How to map RNA-seq reads to an annotated reference genome in GFF format
  Hi, I am trying to map RNA-seq reads to a GFF annotation file I created using tophat2 through Ga...
• Blast
  Hi... I have an analysis of 18,000,000 + sequences (X4) blasting through the HTGS database. Is ...
• Why won't Galaxy recognise uploaded hg19 .fasta.gz file?
  Hi. I'm doing RNA-seq analysis for the first time and want to upload the hg19 genome from 1000 Ge...
• Extracting Sequences with coordinates directly from the human genome(hg19), using biopython or Galaxy
  Hi! I am not able to enter the build number in 'Fetch Sequences for intervals in' section in the ...
• [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 ...
• Fw: [Galaxy-Bugs] Galaxy Tool Error Report From Bsib@Leeds.Ac.Uk
  Hi Jen, thanks. I am a bit confused: on Galaxy the only human genome listed is hg_g1k_v37. So w...
• 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...
• Problems Using Aachanges Tool
  Hi, I am trying to use the aaChanges tool. I have a file of SNPs in the correct interval format...