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• Can you use Galaxy Lift-over to convert ce10 genome coordinates to ce11?
  I am trying to convert wig (or bigwig) and bed (or bigbed) files from the UCSC ce11 (WBcel235) co...
• Convert genome coordinates from hg19 to mm9
  Hello, I'd like to use the COSMIC data to compare with my mouse exome-seq data, so I'm trying t...
• Using Lift-Over to convert GRCh37 to GRCh38. "no option available" for converting "To" field
  I have a bed file in GRCh37 coordinates that I want to convert to GRCh38. I am trying to use li...
• Lift-Over: Unique Baboon Locations Convert to Single Human Location
  I am currently trying to see which SNPs from a GBS project I'm working on convert and overlap kno...
• Mm7 Chromosome Name
  Hello, I have a set of coordinates for mm7 that I have been using try to extract the genomic seq...
• Help Regarding Annotation
  Dear galaxy, Conceptually if I take sequences from mm9 and use the lift over to convert them to ...
• how to convert chicken genomic coordinates between assemblies?
  Hi, I 'd like to convert my file of chicken genomic intervals from the 2006 assembly to the 2011...
• Lift Over Function For Ce5 (Ws180) To Ce6
  Hi, I tried to lift over a list of chromosome mapped to WS180 (ce5) to ce6, but it seems that ga...
• Lift-Over tool in Galaxy error: 'Exception caught attempting conversion: '
  Dear all, I'm trying to remap mm9 genome coordinates to mm10 from a .BED file. Galaxy "Lift-Ove...
• Sicer and mm10/ galaxy lift-over
  Hi All, Is there any chance the SICER will or can be updated to support mm10?  Also, it doesn't ...
• Comparing Data Sets With Different Coordinates
  Hello, May I use galaxy to do correlation analyses with two continuous quantitative data sets co...
• Workflows With Tools That Use Dbkey
  Hello, Is there a way to add a tool that needs a 'dbkey' information (that is - a genome metadat...
• 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...
• Conservation (I.E. Phastcons) Q
  Hi All, I am using Galaxy (main) and would like to intersect a bed file I have with the PhastCon...
• UCSC gene names
  I have uploaded a database of genes from the UCSC genome browser (Hg38) to Galaxy, to identify th...
• mapping over lapping genes to CNV probes
  I am very new to galaxy. I have CNV call data which has a start position and stop position for th...
• Rn6 support for Lift-Over?
  Does anyone know if there are plans to add support for the Rn6 genome assembly to the Lift-Over t...
• Problem Report!!
  Dear Galaxy member, I'm sending you this e-mail because of a problem I have in fetching sequence...
• Error when trying to stitch MAF blocks
  Hi, I am trying to stitch multiple alignments from about 25 species in the 100-way multiZ MAF on...
• Tss List With Annotation For Hg19
  I want to extract TSS ids with correspodning location for Hg19. Once I extract such TSS coordina...