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Make the text "These include primary datasets (fastq and metadata). Additional analysis (alignment and quantification) produced from a standardized analysis pipeline will be made available this summer…
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Hi,
Thanks for the methylation analysis pipeline.
I was testing a human WGBS data with msPIPE, and I used UCSC hg38 for reference. When running with run_MethylSeekR.pl, I got the following error…
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For capture-3c-seq, I want to co-expression two or more independent sgRNA. I want to know if the “C3S” pipeline can preform multiplexed analysis? Can the pipeline avoid interference between sgRNAs?
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Hi! I want to peform this pipeline to profile the false duplications in my own assemblies.
One of my wonders before analysis is that, of the input files in preparation,
> 6. Assembly gap file
> …
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### Jenkins and plugins versions report
Environment
```text
Jenkins: 2.401.1
OS: Linux - 6.1.25-37.47.amzn2023.x86_64
Java: 11.0.19 - Eclipse Adoptium (OpenJDK 64-Bit Server VM)
--…
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Copied from the [RFA](https://chanzuckerberg.com/initiatives/rfa)
The goals of this RFA include, but are not limited to:
* Developing standard formats and analysis pipelines for genomic, proteom…
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First, ensure that all production deployments have been addressed
- bin/intake_multiprocess.py
- bin/reset_analysis_database.py
- emission/analysis/intake/segmentation/trip_segmentation_methods/dwell_…
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### Operating System
Ubuntu 22.04
### Other Linux
_No response_
### Workflow Version
v1.1.1
### Workflow Execution
Command line
### EPI2ME Version
_No response_
### CLI command run
./nextfl…
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As part of the pipeline for updating the analysis with new data, we will need functions that:
- [ ] Check for updates in data
- [ ] Append to existing datasets (both air quality and covariates)
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Within the function `prep_group_analysis_workflow` in `cpac_group_analysis_pipeline.py`, if scrubbing is turned on then various motion parameters are added to the phenotypic file. This seems redundant…