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**Topic name:** ribosome profiling
**Short description:** With ribosome profiling, ribosome-protected mRNA fragments are analyzed with RNA-seq techniques leading to a genome-wide measurement of th…
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I am running the test of Riboseq-flow on the clusters. I can successfully run the test in my home directory, where the riboseq-flow repo is stored. However, when I change the working directory and run…
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After installing Riboseq-flow, I ran the test using the following command
nextflow run iraiosub/riboseq-flow -r v1.1.1 -profile test, singularity
But I got the error during mapping.
Jun-19 17…
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Hi,
I setup Riboseq-flow using NextFlow and Singularity which are installed in a Conda environment. I can run the test without errors.
nextflow run iraiosub/riboseq-flow -r v1.1.1 -resume -profi…
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Hi!
We are doing riboseq analysis on some fastq files. We are using Fastp for adapter identification and removal. But, we are facing some problems. fastp is able to remove the adapter sequences onl…
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Hello!
First of all thank you for developing Ribo-TISH! I have found it really useful for the QC it provides and also for uORF prediction.
I have a question that I am not sure that it is relevan…
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hey! thanks for developing this fantastic tool! I've been using it with great results and included it in a number of pipelines, with plans to include it the the `nf-core/riboseq` pipeline as a P-site …
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Is there an option to extract UMI at the 3' end of reads? Could you add that function?
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Hi DeepRibo developers,
thanks for making this package, it is very convenient to work with.
I'm currently testing the predictions from DeepRibo for a bacterium where we have new RiboSeq data.
I a…
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Hello,
I tried running RiboseQC on bam files obtained with another RiboSeq analysis pipeline called riboflow.
The analysis fails at the P-site step:
`Calculating P-sites offsets ... Mon Jun 2…