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Myrtle-bio

plotHeatmap set multiple yMax values error

1

deeptools 3.5.4.post1 Python 3.10.13 plotHeatmap -m ../05_visualization/matrix/H3K4me3_1sc_rep1_4_methods.mtx.gz --refPointLabel "center" -o ../05_visualization/plot/Heatmap_HCT116_H3K4me3_1sc_rep1_4_methods_center.png --dpi 300 --colorList "white,#2600f6" --zMax 300 10 10 300 5 --yMax 300 10 10 300 10 Traceback (most recent...

wddyzxxx

- [x] Paste your deepTools version (`deeptools --version`) and your python version (`python --version`) below. deeptools 3.5.4 python 3.10.12 - [x] Paste the full deepTools command that produces the issue...

Kiliankleemann

correctGCbias error

1

Hello, version: deeptools 3.5.4.post1 python version: Python 3.9.16 I am trying to run `correctGCbias` as a part of a CNV calling pipeline. As mentioned in your manual, I used `computeGCbias`...

LavanyaRanganathan95

Average plot using all groups

4

Hi, Thank you for the fantastic software! I was wondering if there is a way in PlotHeatmap of plotting the average line plot using all groups instead of separately by...

raquelgarza

Why enrichment of TSS and TES region are similar when using scale-region

1

Hello, While using plotProfile to create enrichment for a Pol cut-tag dataset, I got similar enrichment peak around TSS and TES which actully will show higher enrichment in TSS than...

haojin9288

Hi, I use same command to map the location to my methylation data. computeMatrix scale-regions -p 8 -R Short_Up_Group1_Res2_Loci_Methy_Res2Treated_test.bed -S Res2_MeDIP_Merge.sort.ReDup.bw Res2_Input_Merge.sort.ReDup.bw --beforeRegionStartLength 5000 --regionBodyLength 5000 --afterRegionStartLength 5000 -o Short_Up_Group1_Res2_Loci_Methy_Res2Treated_test_gene.gz...

lillianj97

**Welcome to deepTools GitHub repository! Before opening the issue please check that the following requirements are met :** - [ ] Search whether this issue (or a similar issue) has...

nilanjana1996

I calculated the average signal of the genes upstream and downstream 20k or 50k at firstly, then I plan to gain the 20-50k average signal by the above results.but when...

liuyu988

Hi, I performed the alignmentSieve --ATACshift, before that the bam file was: R1 1107 chr1 3050133 40 35M 3050133 -35 R2 1187 chr1 3050133 40 35M 3050133 35 after the...

njwehi