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Auspice will soon be able to parse an extended version of the [genome_annotation](https://github.com/nextstrain/augur/blob/master/augur/data/schema-export-v2.json#L53-L92) which will allow segmented C…
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Hello,
I am using a reference genome of Folsomia candida available via NCBI's datasets for RNA-Seq expression studies. A part of the gene/transcript annotation contains multiple mRNA / CDS annotatio…
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Sorry to bother you, when i run the following code:
copykat.test
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I’ve used IGV Web App for a couple years to browse the sacCer3 genome. In the past, you could simply enter a Gene Name in the search box and the you would automatically be directed to the appropriate…
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Hi there,
Thanks a lot for creating these great resources. I am working on a project to build community models. Unfortunately, some of the species are not present in this repository. To be consistent…
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While I find the lists of TF names here (https://resources.aertslab.org/cistarget/tf_lists/), I cannot find anywhere which genes / motifs these TFs correspond to. I'd like to associate each TF in the …
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Hi Simon,
I am trying to identify viral auxiliary metabolic genes (AMGs) using VirSorter v2.2.4 and DRAM v1.2.0 (viral mode; --skip_trnascan). The “viral-affi-contigs-for-dramv.tab” file has been…
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I've found a thread on this from 2020/2021 that seems to indicate that this is the result of an incomplete index generation, or mismatching chromosomes in the transcriptome annotation/genome reference…
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Hi, everyone:
I am running docker/singularity version of MitoHiFi with apptainer as:
`apptainer run -C -B /home -B /project -B /scratch -W ${SLURM_TMPDIR} mitohifi.sif python3 /opt/MitoHiFi/src/…
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- [x] Remove all donwstream analyses e.g., DeSeq & PCA
- [x] change script [[count-matrix.py](http://count-matrix.py/)](http://count-matrix.py/) line 40 sep="\t" to sep = ","
- [x] switch to one s…