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Adding independent ranges by sample option: for zMax zMin yMin and y…

1

…Max adding the possibility to set them to the value independent. It creates different ranges for each samples **Welcome to deepTools GitHub repository! Please check the following regarding your pull...

organic-chemistry

computeMatrix scale-regions. error("'i' format requires -2147483648 <= number <= 2147483647",)

3

Hi I am having issues with `computeMatrix scale-regions`. - I did not find this issue (or a similar issue) using the search tab above. Please point me to the right...

alfonsosaera

Hi. I have a question w.r.t to plotProfile and plotHeatmap. I have plotted the ChIP-seq peaks from different reference points like TSS and center. When I plotted the peaks in...

Unlock-ViV

latin

1

**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...

AkikoKumagai

bamCompare 3.5.1 deeptools 3.5.1 Python 3.7.3 (also with Python 2.7.15) bamCompare -b1 b1.bam -b2 b2.bam -o log2ratio.bw --skipZeroOverZero -p 5 bamFilesList: ['b1.bam', 'b2.bam'] binLength: 50 numberOfSamples: 0 blackListFileName: None skipZeroOverZero:...

therealgenna

Fix custom sample labels

1

**Welcome to deepTools GitHub repository! Please check the following regarding your pull request :** - [ ] Does the PR contain new feature? - [ ] Does the PR contain...

pavanvidem

BamCoverage: last bin

4

Hi, I have `deeptools 3.3.0` under `Python 3.7.0` and I have a question on how `bamCoverage` handles the last bin. I want my coverage from bam file to be binned...

sarah872

multiBamSummary bin coordinate shift

3

Hi, I'm using multiBamSummary to count read number of each 1kb window in my samples with deeptools 3.3.1. My code: multiBamSummary bins \ --bamfiles /public1/home/samples/*bam \ --binSize 1000 -p 4...

xinl22

While using computeMatrix it is saying segmentation fault.

1

I am trying to use compute Matrix for ChipSeq data. After running parameter it is saying segmentation fault computeMatrix scale-regions -S /Users/MF/Desktop/ERX011404.final.rpgc.bw can you please comment something how to resolve...

azadeutsche114

deepTools reports it cannot find an existing file, if it is truncated

2

This issue has some similarity to [other](https://github.com/deeptools/deepTools/issues/663) [reports](https://github.com/deeptools/deepTools/issues/1059) of a BAM file being reported to not exist, when it does. Here is an example of this error: ``` bamCompare -b1...

cviner