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• Retrieve coordinates as a Granges object from a custom track of UCSC genome browser using rtracklayer
  Dear all,   I would like to retrieve coordinates (as a BED file) from a custom track of UCSC ge...
• Uploading sequencing data from GEO to USCS Genome Browser
  Hello, I am trying to upload ChIP seq and S/MAR-seq data from GEO to my UCSC genome browser ses...
• How To Build A Custom Track?
  how to build a custom track when the file is in BED format and upload in the UCSC genome browser?
• Loading Ucsc Custom Track Automatically
  Hi, is there a way of loading a ucsc genome browser track automatically from a script (preferably...
• How To Generate "Ucsc Genes Track" In Local Ucsc Genome Browser?
  Hi all, I would like to generate a "UCSC genes" track for a genome hosted in the our local UCSC...
• How to understand data in custom track of ucsc genome browsers
  Hi everyone, I am looking at these custom tracks for whole genome sequence of a zebra on ucsc ge...
• Jumping To The Next Bed Coordinate In The Ucsc Genome Browser
  I have a genome wide very sparse custom bed track uploaded to the UCSC browser. I would like to j...
• How To Intersect Two Tracks In Ucsc Table Browser And Get Fields From Both?
  In the UCSC Table browser, I'm trying to intersect a custom track (with genomic coordinates and a...
• How Best To Add Custom Variation Track To Ucsc Browser?
  I have generated sequence variants (SNPs/INDELs) by NGS resequencing and would like to display th...
• How to search for specific data in gff file
  I am currently reading a paper which deals with the transcription factor Sp1 binding sites on Chr...
• Download ChromHMM tracks H3K27ac marks (as BED file) from Roadmap
  I can easily view the chromHMM tracks for Roadmap project but not able to download the bed files ...
• uploading data in UCSC Microbial genome browser
  Hi I have *_sorted.bam file (prokaryotic/RNA seq) which i want to upload from my local machine (...
• Custom tracks on UCSC Genome Browser with a way to control items displayed by upper and lower cutoff
  Hi, I'm trying to represent a custom file on the UCSC Genome Browser. This file contains results...
• Displaying Different Sized Lines In Ucsc Genome Browser
  I'm new to using the UCSC genome browser, and I'm making a custom track of SNPs where I'd like th...
• Adding a custom track to a current session UCSC genome browser
  Hi, I have a session in UCSC that I am working in. I am trying to add a new custom track to the ...
• Batch Viewing Of Ucsc Browser Graphic
  Often times I need to pick out good looking examples of NGS results from a list that can be up to...
• Adding Custom Bed And Bam Tracks To UCSC Browser By URL
  I'm trying to add custom tracks to a UCSC genome browser session. I can add BAM files as follows:...
• How to upload my own BAM file to UCSC genome browsers?
  http://genome.ucsc.edu/goldenPath/help/bam.html This is the workflow for generating a BAM custom ...