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Are there any guidelines on the memory consumption of createASVCF.sh? I've run out of memory even when allocating 150GB. I don't really know how to best tell if this is normal or if I'm doing somethin…
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Hi @akundaje @leepc12 , I noticed that the README was updated like an hour ago, which basically says that the WDL-based pipeline is an exact copy of this pipeline. However, what I found was that using…
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Dear developers,
First, thank you for giving us this pipeline, it is a great help!
I am trying to run it, and at the point that it tries to make the TSS enrichment plot and calculate the GC bias…
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Hi !
I am trying tu use msCENTIPEDE to generate TF footprints for several ATAC-seq data sets i've produced.
I wanted to have general advices on how to achieve the most accurate workflow.
So far, w…
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Hi there,
I have a problem running the pipeline which I have set up on a SLURM HPC. It had worked previously and I used it regularly for the best part of a year. However it stopped working after a …
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## **Describe the bug**
I am trying to install the atac-seq-pipeline and having issues with installing the conda environments to even get the pipeline installed. Have been trying this for few weeks n…
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Hi,
another problem with phantompeakqual or with R
```
Decompressing ChIP file
Decompressing control file
Loading required package: caTools
Reading ChIP tagAlign/BAM file Hs_940_temp//M940_…
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Hi all,
Thanks for this great tool! I have a question on its use though.
Could the user examine the binding specificity of the motifs in your models by querying a sequence > 10000b introducing an …
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I tried the example json on the SCG cluster, and it exited with errors. I read in another issue that this type of error can occur if installed with mamba. However, I did not install with mamba. Please…
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Ciao! Thanks for joining this project!
I am Luca Pinello the team leader for @hackseq/2016_team_4 .
I am currently an Instructor at Dana-Farber Cancer Institute/Harvard School of Public Health and …