# \#circos **URL:** https://help.galaxyproject.org/tag/circos/349.md [Latest](https://help.galaxyproject.org/latest.md) · [Categories](https://help.galaxyproject.org/categories.md) · [Tags](https://help.galaxyproject.org/tags.md) --- ## [SNP density visualization](https://help.galaxyproject.org/t/snp-density-visualization/14743)
**Author:** [@P.A.P\_KUMARA](https://help.galaxyproject.org/u/P.A.P_KUMARA)\ **Replies:** 1\ **Last updated:** [February 15, 2025, 4:56pm UTC](https://help.galaxyproject.org/t/snp-density-visualization/14743 "2025-02-15T16:56:15Z")
I already extract the SNPs and INDELS in haploid genome. As well I have chromosome lengths. Now I want to clear path for SNP and Indel visualization in Circos link track. What are the possible tools and steps to do this… --- ## [How I work with circos tool in galaxy.org correctly ?](https://help.galaxyproject.org/t/how-i-work-with-circos-tool-in-galaxy-org-correctly/14685)
**Author:** [@E.L.A.T\_LIYANAGE](https://help.galaxyproject.org/u/E.L.A.T_LIYANAGE)\ **Replies:** 3\ **Last updated:** [February 10, 2025, 12:09am UTC](https://help.galaxyproject.org/t/how-i-work-with-circos-tool-in-galaxy-org-correctly/14685 "2025-02-10T00:09:20Z")
I am currently work on WGS data in galaxy.org and I want figure out how to run circos in correct manner. I have a alignment vcf files, reference genome files. How I convert these files into the circos configuration files… --- ## [How to create karyotype for the circos plot](https://help.galaxyproject.org/t/how-to-create-karyotype-for-the-circos-plot/14623)
**Author:** [@P.A.P\_KUMARA](https://help.galaxyproject.org/u/P.A.P_KUMARA)\ **Replies:** 1\ **Last updated:** [February 1, 2025, 12:30am UTC](https://help.galaxyproject.org/t/how-to-create-karyotype-for-the-circos-plot/14623 "2025-02-01T00:30:41Z")
How to create karyotype for the circos? Are there any tools to make karyotype file in galaxy.org? How I find chromosome length/position in whole genome and Is there any tool for this?? --- ## [Circos - heatmap - viridis](https://help.galaxyproject.org/t/circos-heatmap-viridis/13386)
**Author:** [@alwinprem](https://help.galaxyproject.org/u/alwinprem)\ **Replies:** 7\ **Last updated:** [September 12, 2024, 6:22pm UTC](https://help.galaxyproject.org/t/circos-heatmap-viridis/13386 "2024-09-12T18:22:11Z")
Use of Viridis in heatmap on circosplot… How to input --- ## [Circos: transparency of fill color in tiles](https://help.galaxyproject.org/t/circos-transparency-of-fill-color-in-tiles/10866)
**Author:** [@Usama\_Mukhtar](https://help.galaxyproject.org/u/Usama_Mukhtar)\ **Replies:** 4\ **Last updated:** [October 2, 2023, 6:38pm UTC](https://help.galaxyproject.org/t/circos-transparency-of-fill-color-in-tiles/10866 "2023-10-02T18:38:03Z")
Hi, I have been trying to create a circos image with multiple overlapping tiles that can be visible as overlapping with transparent fill colors. For some reason the transparency of fill color for 2D-data tracks doesn’t s… --- ## [Circos - can't call method "colorExact" error](https://help.galaxyproject.org/t/circos-cant-call-method-colorexact-error/9916)
**Author:** [@lampad](https://help.galaxyproject.org/u/lampad)\ **Replies:** 2\ **Last updated:** [April 20, 2023, 5:38am UTC](https://help.galaxyproject.org/t/circos-cant-call-method-colorexact-error/9916 "2023-04-20T05:38:20Z")
Hi, I followed the tutorial ‘Visualisation with Circos’ and tried both hg18\_karyotype\_withbands.txt (custom) and Human hg18 (preset). After I ran the tool I obtained the following error in both cases: Can’t call method… --- ## [Circos "colorExact" error](https://help.galaxyproject.org/t/circos-colorexact-error/8838)
**Author:** [@akankshabafna](https://help.galaxyproject.org/u/akankshabafna)\ **Replies:** 2\ **Last updated:** [February 7, 2023, 8:31pm UTC](https://help.galaxyproject.org/t/circos-colorexact-error/8838 "2023-02-07T20:31:09Z")
@jennaj @gmauro Circos job executed error free before. On re-run gives an error Can’t call method “colorExact” on an undefined value at /usr/local/tools/\_conda/envs/mulled-v1-3cf5c7d734898be0f8d76d0fbf3face5f99ca4b3a9b… --- ## [How to visualize HIC data in a circular layout](https://help.galaxyproject.org/t/how-to-visualize-hic-data-in-a-circular-layout/9278)
**Author:** [@Oksanak22](https://help.galaxyproject.org/u/Oksanak22)\ **Replies:** 1\ **Last updated:** [January 14, 2023, 12:04am UTC](https://help.galaxyproject.org/t/how-to-visualize-hic-data-in-a-circular-layout/9278 "2023-01-14T00:04:24Z")
Hello. I have HIC data (.hic and.cool files) and i can’t visualise them in a circular layout. I used “Circos visualizes data in a circular layout” form https://usegalaxy.org/ . Any suggestions or comments? Thank you, … --- ## [Circos Tiles plot](https://help.galaxyproject.org/t/circos-tiles-plot/7788)
**Author:** [@akankshabafna](https://help.galaxyproject.org/u/akankshabafna)\ **Replies:** 1\ **Last updated:** [March 31, 2022, 6:17pm UTC](https://help.galaxyproject.org/t/circos-tiles-plot/7788 "2022-03-31T18:17:17Z")
Hi, I am using Circos and trying to make tile 2dplot. My ideogram is mm10. Everytime I execute the job I can just visualise ideogram with no 2D plot. --- ## [Circos Plot: Job waiting to run \> 72 hours](https://help.galaxyproject.org/t/circos-plot-job-waiting-to-run-72-hours/7677)
**Author:** [@Miniimi54](https://help.galaxyproject.org/u/Miniimi54)\ **Replies:** 5\ **Last updated:** [March 21, 2022, 8:04am UTC](https://help.galaxyproject.org/t/circos-plot-job-waiting-to-run-72-hours/7677 "2022-03-21T08:04:48Z")
Hi, I submitted a job to produce a Circos Plot over 72 hours ago and it is still grey and waiting to run. It’s a fair amount of information, and I’ve read the other topics on this and so understand the process but this … --- ## [Circos of comparative genome](https://help.galaxyproject.org/t/circos-of-comparative-genome/7032)
**Author:** [@Sakshi](https://help.galaxyproject.org/u/Sakshi)\ **Replies:** 1\ **Last updated:** [November 15, 2021, 7:56pm UTC](https://help.galaxyproject.org/t/circos-of-comparative-genome/7032 "2021-11-15T19:56:31Z")
Dear Admin, I have compared two genomes using minimap2 and I want to visualize the comparison with the help of circos. Please guide me on how I can implement the input file so that it could become easier for two genome … --- ## [Cómo obtener tablas de número de copias a partir de un archivo BAM (Circos)](https://help.galaxyproject.org/t/como-obtener-tablas-de-numero-de-copias-a-partir-de-un-archivo-bam-circos/5944)
**Author:** [@Alejandra1819](https://help.galaxyproject.org/u/Alejandra1819)\ **Replies:** 1\ **Last updated:** [May 13, 2021, 5:09pm UTC](https://help.galaxyproject.org/t/como-obtener-tablas-de-numero-de-copias-a-partir-de-un-archivo-bam-circos/5944 "2021-05-13T17:09:44Z")
Hola a todos!!! tengo mis datos de secuenciación de RNA analizados y quiero construir Circos Plot para observar cambios Inter cromosómicos, pero actualmente no entiendo muy bien con cuales herramientas de Galaxy podría o…