User: cattapre

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cattapre0
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Posts by cattapre

<prev • 5 results • page 1 of 1 • next >
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Analyze single-end reads in MMDiff2
... I am trying to test the MMDiff2 package on some of my single-end read ChIP-seq data, but getPeakReadsalways returns me error messages (warnings). I cannot get the full package to work. The messages are: In getReads(P, chroms[j], bam.file, pairedEnd = pairedEnd) :   reads have different read length ...
software error mmdiff2 written 2.8 years ago by cattapre0
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Answer: A: Problems with double read counts on ChIPQC
... Thanks for your reply, Tom. I will look my data closer and see. ...
written 3.2 years ago by cattapre0
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Problems with double read counts on ChIPQC
... I have started using ChIPQC, and noticed that the read counts reported by the ChIPQC report are consistently twice as large as counts reported by MACS2. I looked in the ChIPQC documentation and could not find a reason why. Likewise, I googled the issue and could not find a plausible explanation. I ...
chipqc written 3.2 years ago by cattapre0 • updated 3.2 years ago by rsuarez0
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Comment: C: 'reached elapsed time limit' error on ChIPQC
... It worked. Thanks, Martin! ...
written 3.3 years ago by cattapre0
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'reached elapsed time limit' error on ChIPQC
...   I am trying to run ChIPQC on a 16-sample experiment (with 16 respective controls), but I am getting a message as below. I am running on a Ubuntu cluster running 17 threads for my job. That's the output I get (included sessionInfo() ) Loading required package: ggplot2 Loading required package: D ...
chipqc written 3.3 years ago by cattapre0 • updated 3.3 years ago by Martin Morgan ♦♦ 24k

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Popular Question 2.7 years ago, created a question with more than 1,000 views. For 'reached elapsed time limit' error on ChIPQC

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