Long Ranger2.1, printed on 11/14/2024
| Analysis software for 10x Genomics linked read products is no longer supported. Raw data processing pipelines and visualization tools are available for download and can be used for analyzing legacy data from 10x Genomics kits in accordance with our end user licensing agreement without support. |
Loupe requires and runs on .loupe files generated by the longranger pipeline. The Loupe file for a given sample can be found in the outs subfolder of the sample folder output by longranger.
Once Loupe is started, click on the open file button to select a Loupe file to load. You can load a different file at any time by clicking the Open Files... link in the upper-right corner of the window.
Loupe provides a search bar at the top of the window for genome navigation. The search bar accepts gene names or loci in chr:start-end format. Loupe supports multiple search ranges, separated by spaces, commas, or semicolons. Loupe will maintain the previously selected loci ranges (if possible) when switching between views. Valid searches include:
ELM4,ALK: view EML4 and ALKchr1:5000000: display region around chr:5000000chr1:5000000,BRCA1,chr3:7000000-8000000: display regions from three chromosomes: or +; or ,chrXX: or chrXX+ will be interpreted as a gene