deepTools
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deeptools
Tools to process and analyze deep sequencing data.
Hi, These are heatmaps I generated from "exotic" cutandrun experiments done at my lab. The code I used looks like this : ``` plotHeatmap -m matrix.gz \ -out heatmap.png \...
Dear Devon, Thank you for developing and maintaining this wonderful tool. A minor thing, while running `bamCompare` on `deeptools 3.5.5`: ```bash bamCompare \ --numberOfProcessors "$THREADS" \ --blackListFileName "$gen_in"/hg38_blacklist_v2.bed \ --effectiveGenomeSize...
When I run plotProfile on matrix created with the --maxThreshold set I get an error. When I don't use --maxThreshold with computeMatrix or when I downgrade numpy to 1.22.0 everything...
My RNA data was generated using a dUTP-based library preparation method, aligned using STAR, and then processed with bamCoverage using the --filterRNAstrand parameter to generate forward and reverse strand bigWig...
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?...
hi there, This is a "how do I do this" question. Or perhaps it's a "please add this feature" question - not sure if what I want to do is...
**1.** I am trying to install using conda install -c bioconda deeptools and receiving the following error: # >>>>>>>>>>>>>>> ERROR REPORT >> ERROR REPORT
**Welcome to deepTools GitHub repository! Please check the following regarding your pull request :** - [ ] Does the PR contain new feature? - [ X ] Does the PR...
**Welcome to deepTools GitHub repository! Please check the following regarding your pull request :** - [ ] Does the PR contain new feature? - [X] Does the PR contain bugfix?...
