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heatmap appears just dark but plot profiles look great

Open sahuno opened this issue 8 months ago • 0 comments

Dear developers, thanks for developing such a useful tool.

my plot heatmap shows no signal just dark but the corresponding profiles look great. any ideas how i can debug this?

this is the command i used

computeMatrix reference-point --referencePoint TSS \
-S colo829_2024_03_tumor_unphased_filtered_sorted.bw \
-R gencode.v47.protein_coding.genes.gtf.gz \
--transcriptID gene --transcript_id_designator gene_id \
-b 3000 -a 3000 --outFileName "colo829_2024_03_tumor_unphased_filtered_proteinCodingGenes.gz" \
--skipZeros \
-p 4 

plotHeatmap -m colo829_2024_03_tumor_unphased_filtered_proteinCodingGenes.gz --outFileName colo829_2024_03_tumor_unphased_filtered_proteinCodingGenes.png --plotTitle "genes" 

Image

sahuno avatar May 09 '25 03:05 sahuno