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I was trying to use fastq_screen with --aligner "minimap2".
I encountered the error:
`Skipping DATABASE 'genome_xyz' since no minimap2 index was found at '/home/references/genome_xyz/genome_xyz.fa…
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### Description of the bug
I get the error
```
ERROR ~ Cannot invoke method endsWith() on null object
…
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### Ask away!
Hi,
I think `pychopper` only trim and orient the full-length ONT-cDNA. Do we need trimming polyA tail before minimap2 alignment? I saw occassionally some misalign to genomic region.
baozg updated
3 hours ago
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If provide genome by fasta and gtf, workflow will try to generate genome index and gene bed if they are not provided. It works fine when fasta and gtf are uncompressed. However, if any one of fasta an…
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I'm currently creating an [nf-core](https://nf-co.re/modules) Nextflow module for `hostile clean`.
I've come across a slightly strange behaviour when setting up the tests for the module.
For the…
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### Description of the bug
I think the problem might be the format (using .list or .bed formats) that I used to use in intervals parameter and I do not know the correct format (even after reading the…
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Hello developers,
Thank you for developing a nice benchmarking tool. How to generate reference genomes in json format for BinBencher assessment? I couldn't understand from the documentation…
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Dear Author,
Thank you for developing and updating an aligner capable of aligning proteins to a genome on a large scale.
I want to align protein sequences collected from species in the same orde…
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## Check Documentation
I have checked the following places for your error:
I have checked both of these and looked through the introduction to see which steps might require the genome.
- [x] …
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### Description of the bug
I am trying to run the scrnaseq nextflow workflow with the following error message:
ERROR ~ Error executing process > 'NFCORE_SCRNASEQ:SCRNASEQ:GTF_GENE_FILTER ([])'
…