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I am using nextflow with a SGE task scheduler. I've noticed that the pipeline submits many very similar jobs that are batched across a number of samples (e.g., FastQC on hundreds of RNA-seq files with…
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Canvas quiz doesn't show any questions -- tried yesterday on my phone (both through app and safari) and didn't show anything. Finally have laptop access again this morning and still not showing.
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### Description of feature
This is my first time using Nextflow on RNA-seq analysis, and I find that this pipeline works flawlessly. But, I am trying to use this on AWSBatch, and there isn't a profil…
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Hello,
I am trying to run nextflex 150bp paired end data. If I use only R1 so it works. I am not able to pass with both reads.
Thanks.
`N E X T F L O W ~ version 23.10.1
Launching `/home/dat…
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### Description of bug
Hi
I installed multiqc today using conda and I get the following error. The error persists in [v1.22.1](https://github.com/MultiQC/MultiQC/releases/tag/v1.22.1) as well an…
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## Bug Report
### Affected tool(s)
HaplotypeCaller
### Affected version(s)
GATK4.beta5
### Description
HaplotypeCaller does not make some calls depending on the padding size around the in…
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### Description of feature
Total input reads after preprocessing (final step host removal) just reports a percentage but not a number. This should be a number. Because mqc doesn't annotate the krak…
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### Description of the bug
As seen in the attached log file, the pipeline stops working and cycles in error with amazonaws. I am new to nf-core so I am unfamiliar with how all the parts of the pipeli…
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Hi all,
I know that the dada2 tutorial is using cutadapt to remove primers from ITS files. However, I would also need to remove Nextera adapters, which FastQC tells me are still present in the file…
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Hi,
I have been tried to use BASE assembler to get contigs from some 251bp HiSeq Illumina data, but after preparing the 2BWT files using 2bwt_builder_cpu and AsiicBWT2BWT, making a 2bwt_index file…