Header Leaderboard Ad

Collapse

VCF to Circos format(s)

Collapse

Announcement

Collapse
No announcement yet.
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • VCF to Circos format(s)

    Hi,

    Does anyone know if there is a utility out there (vcfutils.pl from samtools? vcftools?) that can convert variants in a VCF file to a file that can be loaded into Circos for visualization? (e.g. highlights track)

    Or has everybody just rolled their own and kept it private?

    Thanks,

    Jesse
    11
    vcftools
    9.09%
    1
    samtools (vcfutils.pl)
    18.18%
    2
    circos
    36.36%
    4
    a new/different project
    36.36%
    4

  • #2
    It would be definitely interesting to have a good
    = interactive+graphical+platform-independent
    visualizer for vcf files (also customized ones with extra fields).

    Comment


    • #3
      Has anyone fold a solution to vcf files and circos?

      Comment


      • #4
        Unless you want to do something really sophisticated it's often easy to parse things out with simple unix one-liners (cut, grep, awk etc.) and format them into the Circos formats.

        Comment


        • #5
          This thread is now two years old, but still seems to be the most relevant hit on the subject. Is there still not a proper VCF to CIRCOS tool?

          Comment


          • #6
            Apparently this thread is 10 years old now, yet no clear answer.

            Comment

            Working...
            X