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Hi @alexdobin ,
Can I use Star to map assembled transcripts to genome?
Best regards
Bin
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Dear yupenghe,
I would like to know to deal with organisms that have chromosomes more than 512Mb.
During mapping, samtools index command failed with showing the error message.
`samtools index: fa…
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Hello everyone!
I am trying to annotate a genome using BRAKER3. I have already done the previous steps (like mapping the RNA-seq to the genome using STAR), but now I'm encountering several problems…
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Reposted from the original question of @MG-DYM
Hi Sir,I want to use T2T-genome and its transcripts.gtf to builde the Reference.It's going wrong at :
Jul 04 21:37:17 ..... started STAR run
Jul …
dg520 updated
2 weeks ago
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gmap is doing a poor job, improve it. Take a look at tophat and search for others.
If none is found a smith-waterman realignment of the gmap result could be an alternative.
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Thank you for providing this tool! I am curious if there is an established cutoff or threshold for determining similarity during analysis. Specifically, have you tested how well the tool can discrimin…
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**Snakemake version**
Note the Snakemake **and** snakemake-wrappers version for which you experience the bug.
Always make sure to try out the latest version of both before creating a new bug rep…
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Hello,
I encountered the following error during the execution of my circular RNA analysis pipeline:
```bash
Indexing .bam file...
open: No such file or directory
[bam_index_build2] fail to op…
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**Describe the bug**
Originally reported by @mihailefter.
VariantValidator doesn't handle the mapping well from transcript to genome around a gap in `NM_017680.6`.
Bases `NC_000009.12:g.92474743_…
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Hello @moldovannorbert really sorry for disturbing again, I am running the demo and managed to run the `trimmed.smk` but I am encountering various errors when running `mapping.smk`.
Specifically …