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I have installed AMR++ on our local computing cluster. I have been trying to get it running on our cluster, and have run into a problem with the multiqc part of the pipeline.
I currently am runnin…
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In the PBCCSWholeGenomeSingleFlowcell workflow, in CallSVs, Sniffles task I got an error where it sounds like there's too few reads in the bam to estimate some parameter it needs? Log file excerpt fol…
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### Title
fMRI-EEG Preprocessing QA
### Leaders
@s_goodale23 - Sarah Goodale
### Collaborators
_No response_
### Brainhack Global 2023 Event
BrainHack Vanderbilt
### Project D…
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1. pgen can store and output dosage from the imputed genotypes
2. our existed pipeline should be able to works on pgen/bim/fam file sets, which leads to the minimum amount of change. (test pending)
…
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Hi all,
The read_clustering step failed for whole operons (16S-ITS-23S, ~4.1k mean read length).
The whole nextflow pipeline ran through without errors (on a Mac M1) with test fastq files `mock4…
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This is for a falcon/0.4.2 run. We are in the process of validating the latest 0.7.x release for our pipelines, but I was wondering if you've seen this error before? It seems to be happening sporadic…
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**Is your feature request related to a problem? Please describe.**
For some species (e.g. Chicken) not all mitochondrial genes start with a certain prefix. For this reason percentage mitochondrial re…
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Hi there. I have a dataset of demultiplexed FASTQ files that I generated that I would love to combine with data pulled from the SRA. The SRA data are demultiplexed and have their barcodes+adapters alr…
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not really an issue, perhaps, but more informational and I don't know what the effect of downstream is going to be. the vcf incorporates phasing at some level. for PASS variants the genotypes look lik…
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- [x] Update ext.prefix and publishDir for all modules
- [x] Add vtdb filtering modules
- [x] Remove extra nf-core content
- [x] Update modules/subworkflows
- [ ] Update schema
- [ ] Update pipeline …