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I tried several times to run.RTCD with object contain cortex or hippocampus, but it still didn't complete after 5-6h with resources
of 500GB and 2GPUs in biowulf. I also increased core to 28, and it …
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Import and run Sarek on the curated dataset on Biowulf and AWS HealthOmics
Test for performance on both platforms
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# Independent user test of GATK-SV single-sample pipeline on Biowulf
Ben previously configured the GATK-SV single-sample pipeline for Biowulf and tested using a COVNET WGS sample. I ran an independ…
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### Description of the bug
Experiencing 137 on samtools sort, after talking with slack community and seqeria, seems to be related to [this](https://github.com/nf-core/methylseq/pull/330)
### Command…
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Need to add a toggle for gatk (+ bwa + picard) vs dragon (give fastq directly and it handles trim, align, variant calling)
Are we already doing scatter/gather (splitting chromosomes) to speed up pr…
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It only supports hg38 and mm10 by default. We may need to reach out to the Arriba maintainer for help creating these fusion files for other genome annotations.
https://github.com/CCBR/RENEE/blob/5f…
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Thanks for sharing. I wonder if I can run launch your docker presentation with singularity on Biowulf. As you know, on the CIT Biowulf HPC system, docker is not available and only singularity can be…
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## nextflow error
```
ERROR ~ Error executing process > 'CHIPSEQ:ANNOTATE:CHIPSEEKER_PEAKPLOT (A549_CTCF.macs_broad)'
Caused by:
Process `CHIPSEQ:ANNOTATE:CHIPSEEKER_PEAKPLOT (A549_CTCF.macs…