-
Convert `transcriptome_annotated.pep` to CSV format as it is more convenient to import in pandas. As discussed with @tomas-pluskal, it makes little sense for the pipeline to first create the `transcri…
-
Hi Brian,
My annotation report is generated but it lacks protein id and related fields. Below are the fields that are being omitted:
prot_id
prot_coords
sprot_Top_BLASTP_hit
uniref90_BLASTP
…
-
Going through the analysis pipeline, after generating Orthogroups and converting the original gxc to exc matrices, it turns out that some Orthogroups end up with the exact same expression values. This…
-
### Publication and Data Information
https://www.nature.com/articles/s41438-019-0194-7
### Additional Information
### Checklist
See [New Genome Documentation](https://github.com/mestato/staton…
-
What is the motivation for assembling the Transcriptome with trinity and translating that, rather than mapping the Transcriptome data to the assembly and building gene models that way?
-
Hi, there
I have used the results from the evm model and aso the liftoff to do the gene annotation. I used the stringtie --merge to combine these two files. There were about 31000 genes in the fina…
-
### Publication and Data Information
Transcriptome analysis of 4 cultivars, all in a database so probably able to be downloaded:
https://www.biorxiv.org/content/10.1101/301358v1
### Additional…
-
Hello,
I used Trinotate to annotate my transcriptome and it finished without an error. The sqlite database is filled out, but the exported Excel file is empty, except the header row. Can you please…
-
**Are you using the latest release?**
yes
**Describe the bug**
I have been running several funannotate update jobs in parallel and I get an error in earlier steps. It is strange because sometimes…
-
### Description of feature
Hi,
I recently came across Mikado which is a pipeline to identify the most useful or “best” set of transcripts from multiple transcript assemblies. Our approach leverages …