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mritchielab / FLAMES

A framework for performing single-cell and bulk read full-length analysis of mutations and splicing.
https://mritchielab.github.io/FLAMES/
GNU General Public License v3.0
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Visualizations #36

Open vasikara17 opened 2 months ago

vasikara17 commented 2 months ago

Hello, do the visualizations work also for the bulk_long_pipeline? It is not so clear in the vignette.

Best, Vasiliki

ChangqingW commented 2 months ago

No I don't think so, we will update the docs

vasikara17 commented 2 months ago

So, the tool takes only single cell data? And something else if you give demultiplexed fastq files from scRNAseq does it need also to have the barcodes available? I am using another technology not 10x so I am not sure.

ChangqingW commented 1 month ago

Yes it will have to be single-cell data. Yes the demultipexed fastq should have the barcode in the identifier field like so: @TCTGGCTCATTCTCCG_GCAGCGAAGCCC#32b5d571-ad88-4ac7-bc46-f2ff03de65aa i.e. @BC_UMI#otherstuff