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milaboratory / mixcr

MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.
https://mixcr.com
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transitioning from postanalysis to exportPlots #1667

Closed Januaryyiyue closed 3 months ago

Januaryyiyue commented 3 months ago

Hello,

I successfully ran the following command for each of my samples, and got one .json file for each sample

mixcr postanalysis individual --default-downsampling count-read-auto --default-weight-function read --metadata /path/to/metadata.tsv --group timepoint /path/to/smaple01_out.clns /path/to/sample01_postanalysis.json --only-productive --drop-outliers

How can I run exportPlot on all of them to get one figure with all samples, instead of having one figure per sample (see below)?

Screenshot 2024-05-22 at 1 08 58 PM
mizraelson commented 3 months ago

Hi, the command should be run for all .clns files at once. This will generate a JSON file for all samples, which can then be used to export plots. See the example here.