Blank heatmap?
Closed this issue · 4 comments
Hi,
I'm trying to produce a heatmap from the output of fastGEAR. However the heatmap printed is just a blank plot. The _count and _scatter plots works fine. I do not get any errors when running the script. Any idea on what to check or fix to get it working?
Cheers,
Magnus
HI - not sure sorry. the no error error is always the worst. if you are able to share your data and your cmd line calls I can try replicate it.
Liam
All good! Thanks! I have made a small example, that I've tested and it 'works'.
The command I used: python3 post_fastGEAR.py -i fastgear_results/ -o test_post_fastgear -p ordering.txt
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There is also a .yml file with info on the conda environment I used to run the script.
I'll try get to this on the weekend
the issue is that neither hutU or group_1996 is in lineage_information.txt. you need to use the SRR ids.