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Hi,
I want to use your tool to analyze an E.coli dataset containing both classical RiboSEQ data and TIS data.
So far, I have been able to run all the modules independently as described in your d…
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Hi,
I've been trying to run the whole pipeline included in Ribo-seq TIS Hunter(ribotish quality, ribotish predict and ribotish tisdiff ) with four different replicates of RiboSeq data. I've had no…
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I'm having an issue with running `ribotish quality` with the `-t` flag set.
Running the following command works:
`ribotish quality -b TI.sorted.bam -g gencode.vM25.primary_assembly.annotation.gtf -…
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Hello,
I got an error when I follow the RIBO-Seq Workflow Template.
**I run the code in R as following:**
> library(systemPipeR)
> systemPipeRdata::genWorkenvir(workflow = "riboseq", mydirnam…
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When trying to download the metadata from an bioproject, I get this error:
```
> download.SRA.metadata("PRJNA591214")
trying URL 'https://trace.ncbi.nlm.nih.gov/Traces/sra-db-be/runinfo?term=P…
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Hi Roleren,
When I run shiftedReads
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Hi, thanks for developing such great software for Ribo-seq analysis!
I have some long-read RNA sequencing data and I have identified some coding novel intergenic genes. But as they are novel interg…
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Hi Lauria Fabio,
Thank you so much for creating ribowaltz tools. When I ran my bam files with rends_heat, I keep meeting the same error and had no way to go through. Could you provide any insight a…
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Thank you so much for creating this powerful tools and I am able to run all commands successfully for my riboseq data.
However, when I try to export the number of reads from psite plot, I don't ge…
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There is an ORF that can be translated into a short peptide in the 5'UTR region, so there should be a periodicity of high low low, and the TIS accuracy score is judged by the period to determine wheth…