search

LincolnSteinLab / gdc-viewer

A JBrowse plugin for viewing GDC Data
https://lincolnsteinlab.github.io/gdc-viewer/
MIT License
3 stars 2 forks source link

Gene Level Copy Number Track #63

Closed agduncan94 closed 4 years ago

agduncan94 commented 4 years ago

Overview Data Format - TXT Data Category - Copy Number Variation Data Type - Gene Level Copy Number Example File ID - b8b369b0-1e63-485c-a711-0211823834fe

Notes Add a SeqFeature for Gene Level Copy Number Track. Similar to BED, so can use common base class BaseBEDLikeFeature.js.

Investigate the best way to display tracks (XYPlot vs HTMLFeature).

File Header gene_id gene_name chromosome start end copy_number min_copy_number max_copy_number

agduncan94 commented 4 years ago

To download sample file

curl --remote-name --remote-header-name 'https://api.gdc.cancer.gov/data/b8b369b0-1e63-485c-a711-0211823834fe'
agduncan94 commented 4 years ago

To learn about pipelines and file formats https://docs.gdc.cancer.gov/Data/Introduction/

agduncan94 commented 4 years ago

https://portal.gdc.cancer.gov/files/b8b369b0-1e63-485c-a711-0211823834fe