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Hello,
I'm using the development version of SCENIC+.
When running the snakemake pipeline, it seems to get stuck on 'download_genome_annotations'...
Contents of my Snakemake folder:
-rw-r…
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I created my own chromsize.tsv:
it looks like
Chromosome Start End
0 chr1 0 248956422
1 chr2 0 242193529
2 chr3 0 198295559
3 chr4 0 19…
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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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BRAKER3 worked for several genomes, but did not for a genome. As shown below, the error occurred as described in the title.
```
singularity exec -B /ddn:/ddn /app/centos8/braker/braker-20230308/br…
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I'm trying to use the _VariantAnnotation_ package to annotate a _VCF_ file from [nf-core/sarek](https://github.com/nf-core/sarek) (UCSC style) using _AnnotationHub_ `EnsDb` objects (Ensembl style), wh…
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Hello,
I am using the chewbbaca_AlleleCallEvaluator on galaxy europe and locally on the machine.
When I use this tool on the allele call output, the "Core-genome Neighbor-Joining Tree" plot is missi…
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I am trying to run query_pan_genome
roughly like this:
query_pan_genome -g clustered_proteins -o output.txt -a difference -i 1.gff,2.gff -t 3.gff
I also tried replacing the -i and -t with --inpu…
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When I run:
`stripSubsetLCBs full_aln.xmfa full_aln.xmfa.bbcols core_aln.xmfa 500 4`
I always get this error:
`Exception FileNotOpened thrown from
Unknown() in gnFileSource.cpp 67
Called by Un…
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## The need
In the case of introns (eukaryotes and some of their viruses), the estimated genomic redundancy can be highly inflated, wrongly indicating that the quality is bad.
## The solution
…
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Hello! I am trying to run satsuma2 and get the following error message:
...
Chaining (inline)...
Filling out repeat lists...
Dynprog'ing...
/var/spool/slurmd/job27515260/slurm_script: line 46: …