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• Issue visualizing RNA-seq HISAT outputs in UCSC Genome Browser
  Hello, I've used Galaxy to run HISAT alignments and Picard marked duplicates on my RNA-seq file...
• GTF no "view in IGV local" option?
  I have GTF in my history but only: display in IGB View display at Ensembl Current display at UCS...
• Galaxy 101: UCSC browser User Supplied Track missing item
  I am following the Galaxy 101 tutorial, and have placed the top polymorphisms on the UCSC browse...
• Viewing BIGWIG files in UCSC
  Hello, Previously I have been able to view BigWig files by clicking on the job, and selecting Di...
• To get "display at UCSC main" after uploading .bw ChIP-seq file
  Dear Sir/Madam, I have just recently directly uploaded a couple of bigwig files for ChIP seq dat...
• UCSC Genome Browser not loading VCF files
  Since 23 Feb I cannot view my VCF files on the UCSC Genome Browser. When I click on the Main link...
• Fetching hg19 with Data manager - UCSC's DBKEY for source FASTA?
  Hi, I'm trying to get the hg19 genome, if I select only the genome from the dropdown menu it give...
• Upload of wig file to UCSC gives tracks with individual chromsomes
  I have created a wig file using MACs but when I upload this onto one of my sessions on the UCSC g...
• HISAT2 input to StringTie with UCSC mm10 or ncbi refseq GTF produces error message
  Hi, there, rerun HISAT2, tried to run Stringtie for TPM, when running only HISAT results as i...
• Displaying Bed Files In Ucsc
  Hello, I have a bed file in this format: chr# start end scores. I tried to view it in ucsc main...
• 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...
• Re: Ucsc->Emboss/Fuzznuc->Ucsc Workflow?
  Hello Curtis, The BED extraction data can be resolved in Galaxy. Pull out the whole gene and the...
• Display A Bed With Track Definition Line
  Hi there, is there a way to display a bed file to UCSC setting the track name and description aut...
• Get Data problem
  Hello, since yesterday, there is a problem on Galaxy. when I want to load my data or form UCSC. ...
• canfam3 built in for Cuffmerge
  Hi, I'm have been using canfam3 from built-in index for TopHat and refflat downloaded from UCSC f...
• Liftover tool not working at UCSC
  Hello, I tried to convert hg18 coordinates in a BED format data with UCSC liftover and it is not...
• One Question About The Genome Coordinates When Using Fetch Sequences
  Hi, I have one stupid question. The coordinates of the region chr1 2351533 - 2351843 from UCSC (...
• Query On Ucsc Genome Browser Software