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**Hello Scenic developers,
I wanted to express my gratitude for creating such an amazing tool. I've used SCENIC to analyze single-cell data that we're interested in incorporating into our Nextflow …
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Dear cdhit development team,
I have a big dataset. Because I predicted genes for each metagenome fasta using the prodigal software, then I got 16 prodigal annotated gene files, each file size is ar…
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hey
Yesterday everything works fine :)
Today:
```
(ppi) marcin@marcin-B550-AORUS-ELITE-AX-V2:~/PPI_Analysis_2022/script$ python rf.py -a lpg_effectors_genes_BUCHRISIER-short.fasta -p effectors…
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Hi,
Is there a sensible way to combine IsoSeq flnc reads and predicted transcripts from an older genome annotation using RATTLE? I expect that the ISoSeq dataset will contain transcripts from genes…
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Dear bactopia team,
I use bactopia and then bactopia-tools eggnog for my genomic prokaryote analyse.
As output i want to have a gff file with prokka and eggnog annotation merged in the same gff fi…
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See https://github.com/obophenotype/upheno/issues/572 for original ticket;
The author (@xianshu1994) is working on developing an algorithm to predict HPO annotations of unannotated human genes. The…
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hi!
I had problems with using funannotate (1.8.14) for gene prediction.
Here is my input command: funannotate-docker predict -i genome.fasta -o predict -s "XXX xxx"
But when training the model,…
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Hi, thank you for your amazing work.
However, I am quite confused about the gene expression input to the model (both paccmann, and RL).
**1. In PaccMann predictor**
Your recent model used rna-se…
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I’m trying to find genes obtained from genome and compare with a Virulent Factors database (VFDB), so, not all genes from the genome will give a match against the database; my problem is, if don’t giv…
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Hi,
The example shows how to do DE analysis with three predictors. Let's say I have only one predictor, the case,control information, and I would like to find DE genes between the two groups. How w…