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• Fetch Alignments using Stitch Gene blocks, but '-' strand has been joined wrong
        As I use Fetch Alignments => Stitch Gene blocks extract genes from the maf file accordin...
• BED or Interval metadata problem with strand assignment
  Hello, I'm having a problem with many bed files I upload or create in Galaxy. Galaxy keeps ident...
• UI problem for intersect
  While working through an exercise for the class I teach I noticed that intersect was returning em...
• how to convert nucleotide strand from BioMart (1, -1) to strands compatible to Galaxy (+, -)
  I cannot figure out how to convert strands coordinates downloaded from BioMart (-1, 1) to strands...
• Aggregate Datapoints returns only nan
  Hi I just can't get Aggregate Datapoints phastCons to work. I have a bed/interval file, I set th...
• There is a link to view human hg19 but not hg38 bed files using UCSC. Why?
  I am working my way through the Galaxy 101 tutorial. When I use hg19 data I have the option of vi...
• FastQ to annotated MACS Peaks
  Hello I'm a Ms Student, and I'm am completely new to galaxy. Since 4 days I'm am trying to lear...
• Sift Analysis Input And Output File
  Sometimes when I do a sift analysis, I noticed that the input and output alleles are different. I...
• BED TO BAM INDEXING
  Hello I have encountered a problem when trying to create bam index file. The whole purpose of t...
• Profile annotation No table available
  Dear all, I have a bed file not annotated, and I would like to use the Operate on genomic interv...
• GFF3 file (source: BRAD) incompatibilities
  Hi there, I've been trying to analyze *Brassica napus* transcriptomic data for the purpose of is...
• Extract Genomic Dna-Strand Information Is Not Recognized
  Hello, I am trying to extract sequences from a FASTA file containing genomic information. The co...
• transcript assembly using StringTie
  I am trying to do assembly using stringtie, but i am getting error: Fatal error: Exit code 1 () ...
• Trouble Pasting BED Entry into Galaxy
  I have previously pasted lines from BED files into Galaxy.  This does not seem to be working any ...