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I am struggling to make read_json work on any data that is more complex than a flat json-map.
For instance, a json like
```json
[{"series":"GSE69360","name":"Biochain_Adult_Liver","path":"https:/…
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What are empirically good values for `l` and `k` when generating a custom database which is going to be used for Oxford Nanopore data?
Anyone some hints here? Would you stick to the default? I am a…
ms-gx updated
3 months ago
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Hi all, I got an interesting and unexpected error.
Unfortunately, I can not retrieve the bam file to see what it is about:
```bash
samtools sort: failed to read header from "-"
```
the log:
```b…
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### Description of feature
It would be nice to somehow visuaise indicate 'groups' of modules within a MultiQC report.
This would ideally be a 'title' of the section, and also maybe a colour-indica…
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Dear rMATs team,
I used rMATS-turbo using FASTQ files for the detection of differential alternative splicing. The FASTQ file had the standard Illumina adaptor for paired-end sequencing. I did not t…
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Hi,
I am quite new to the field of metagenomic sequencing and we are starting a new project in our lab and want to use your pipeline to determine if some sub-strains emerge or abolish over time. Or…
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For testing purposes we need to have two relatively small datasets, with corresponding metadata and contrasts files, to test
- Need one for TempO-Seq (maybe a subset of the PFAS data published by A…
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Hello,
I saw the built-in annotation file ([https://github.com/Illumina/SpliceAI/blob/master/spliceai/annotations/grch38.txt](url)). But I want to make a custom annotation set. And I want to know h…
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At one locus in this dataset I see that iVar is soft-clipping all the bases except 1 when that base is next to an insertion and mismatches the reference.
I've also included illumina data from the sam…
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I am working with on both Illumina-only and hybrid assemblies and plan to use Unicycler to perform the de novo assemblies. Do you recommend using a read correction program such as Trimmomatic to do qu…