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As I mentioned above, I am trying to find out what is going on with some flv_trust4 data totally unsuccesfully.
On top of the lack of efficient guidance from the company, we made numerous trials g…
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### Description of feature
[cellranger_count.py](https://github.com/nf-core/scrnaseq/blob/master/modules/nf-core/cellranger/count/templates/cellranger_count.py) currently just uses `subprocess.run` f…
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**Describe the bug**
Running medaka_consensus on certain fastq-files seem to generate a ""Incomplete aux field" error (see provided data).
[data.zip](https://github.com/user-attachments/files/160832…
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Hello,
Thanks for developing and maintaining great tools!
I've attempted to generate fastq files for the below runs using fasterq-dump, but unfortunately, it didn't work. I received an error cod…
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Hi developpers,
I used blaze on nanopore data. My initial fastq size was ~150G per sample.
After using blaze, my fastq size dropped to ~70G per sample.
In summary, only 7% of reads failed.
Is i…
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Code:
`magicblast -query A16_S4_4_S22_S23_R1.fastq.gz -query_mate A16_S4_4_S22_S23_R2.fastq.gz -db USDA1106_reference -num_threads 24 -infmt fastq | samtools sort -n | samtools view -bS > A16_S4_4…
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Hi I am getting the following error:
sample1.fastq.gz is either empty or contains multiple entries with the same identifier. Please check your input FASTA file and execute genomad annotate again. …
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Have successfully installed all the software and then run
`$ ~/bin/doctor.py`
Below is the output
`$ ~/bin/doctor.py
# Doctor! Doctor! Give me the news.
# Checking symptoms ...
# bwa …
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> cat PUMATAC_tutorial-main/PUMATAC/src/singlecelltoolkit/processes/barcode_correction.nf
nextflow.enable.dsl=2
//binDir = !params.containsKey("test") ? "${workflow.projectDir}/src/singlecelltoolk…
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Two possible additions
### An equivalent to the `-m` option in ska1:
> Finally, the base call for the middle base in the split kmer is filtered to remove any bases where the minor alleles are foun…