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### Contact Details
chiwonchung98@gmail.com
### What happened?
I've been tinkering with this pipeline for a few days but I cannot get it to work. I'm fairly new to Snakemake so I'm not exactly sure…
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Hello,
I have noticed that some of my outputs do not create a consensus or haplotype fasta file. I wanted to make sure I understood the issue so I looked at the `rvhaplo.sh` script and captured the…
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Hello,
I'm having an issue running this pipeline with a new genome index. This install works very well when aligning to human, but with a STAR index/genome/GTF file for another species it fails afte…
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**Describe the issue**
I'm not sure if these are a singular problem or a series of problems. FWIW, I'm doing this on SLURM.
1. LtrPipeline: GenomeTools failed to run ltrharvest. Error code: 65536
…
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Can you create a dendrogram from the dist results?
Also, could you recommend parameters for large fungal genome comparison?
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scEmbed is an excellent job that provides an dimensionality reduction encoding for scATAC-seq data. When I tried to use it to map my data, I found that it took an extremely long time to run model.enco…
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**A reproducible template workflow for single-cell DNA methylation data**
DNA methylation is a heritable epigenetic mark that shows a strong correlation with transcriptional activity, and may be de…
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Hello,
I'm working on NIS proteins and I have predicted BGCs on 140 genomes with Antismash v7.1.0, version that introduces the NI-siderophore product. When I run BiG-SCAPE on those results I encoun…
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a better? or at least more understandable? version of https://github.com/dib-lab/sourmash/issues/333
see gist at https://gist.github.com/ctb/85fe2efb23b70bbd72ea6a69750d1284
# the README from th…
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I have tried to fix this but looks like funannotate compare needs .faa files that doesnt recognise even when I place them in the same directory
/pangenome_out# more funannotate-compare.log
[08/22/…