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I recently quantified a set of RNA-seq samples using both Salmon and RSEM to eventually do differential isoform analysis. When the overlap of significant isoforms was rather low -- even though the onl…
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Hi Laura,
It would be great if there was an option to be able to submit a MSA instead of a protein sequence as input for gget alphafold. The use case here is to submit (manually) curated MSA, instead…
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**Are you using the latest release?**
Hello Sir,
I am using funannotate 1.8.7 with the below command, but get an error of "the database is locked". Some issues suggested setting --CPU=1 or -T 1. Whe…
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- (mostly . . . allow exons to overlap), just for specific isoforms
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as @cmdcolin noted, we have a bunch of code for frameshifts and they are in the code, but we do not appear to act…
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I would like to know how each input file was obtained, and whether I can also use hg38 as a reference genome to apply to other projects.
My current understanding is that the two 2bit files are conver…
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Hello,
I am a master's student trying to analyze the relative percentages of different isoforms of myosin via SDS-PAGE. Many of the samples I am working with involve 3 or more bands, and I am unsur…
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Hello, I have a question. Can the app be used to find DEGs in cases where transcript isoforms are not know.
I am working with an organisms where only one isoform is known for one gene. I tried to ru…
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Since 17/Nov/2015, there were a few updates:
"You can see the list of changes below. Every attribute is preceded by a
symbol which is either + (addition), - (removal) or ~ (modification)."
**14…
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Alex has create a test file containing all human annotations that GO Central want to load:
> The set of protein accessions included in this file is based on UniProt reference proteomes, which provide…
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In the pipeline output, we are seeing the error:
```
17:08:35 temp_output_gaf_path: /opt/go-site/pipeline/target/groups/cgd/cgd_temp.gaf
17:08:35 2024-08-21 00:08:35 [INFO] [PID:5250 TID:14048…
kltm updated
2 months ago