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### Description of the bug
I ran "nextflow run nf-core/cutandrun -profile test,conda" command after installing conda and nextflow following the instruction and got the error message
### Command used…
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Currently HP:0011013 contains two labels and definitions, presumably from a hard import somewhrere in the pipeline. We should have a qc step to find these (and remove).
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Hello @akundaje and @leepc12 ,
I wanted to use this pipeline to analyze ultra-low-input, native ChIP-Seq samples [ULI-NChIP](https://www.nature.com/articles/ncomms7033) looking at histone modifica…
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The collectdata pipeline needs to run a bunch of QC checks before ingest into the triplestore. We need to install Holgers SHACL libraries and set up a simple pipeline that allows us to run validation …
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I am currently updating an adaptation of this pipeline from a version forked from v1.1.2 to v2.1.6. Very minor changes were made in both adaptations for the sake of metadata/display, without modifying…
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Hello, I'm trying to run plink-qc.nf on my Linux HPC cluster with:
nextflow run -c my_nf.config /Users/mchiment/.nextflow/assets/h3abionet/h3agwas/plink-qc.nf -profile sgeSingularity --samplesheet…
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Hello there, I'm new to using pairtools and have some Micro-C's to analyse and found your walkthrough (thanks, it's been very helpful!)
I had a question, and it might be that I keep missing it in t…
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Old issue description (outdated)
#### What is happening?
I am trying to use the `-set-sform-to-qform` flag of the `sct_image` command. I observe that the changes are not reflecting in the imag…
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Is it possible to have the qc_ label populated automatically from the qi/qg on the constructs page?
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Report from Travyse: in the VCF_QC step the VCF file that I was provided lacks the DP tag, so the pipeline quits on error.