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Hi,
I'm testing scikit-ribo on a set of ribo-seq experiments from human cancer cell lines. I am experiencing the same issue reported by @aemoor some months ago while running gtf_preprocess.py (see h…
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The script is executing until about line 70, judging by the output files present (/Results/fold_changes/deltaTE.txt and Results/Results_figures.pdf, which is empty). I am getting an error that says:
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https://mp.weixin.qq.com/s/z-Gu4V21NSEVRIYbk0VkMA
ixxmu updated
3 weeks ago
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Parameters used:
/ifs/home/sunhang/Riboseq/20210308/ribo.bam
/ifs/home/sunhang/Riboseq/20210308/rna.bam
/ifs/home/sunhang/Riboseq/20210308/annotation
26,28,29
9,12,12
16
-------------…
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Hi there,
Thank you very much for programming DeltaTE. It is very helpful for studying translation regulation.
Recently, I ran an analysis and got some buffered genes, but it is confusing why th…
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Hi Alex,
I am currently working on some ribo-seq from human cell lines. The analysis I want to do and some of the tools I want to run require that I have this data mapped to the genome as well as t…
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Hi, I am using the pipeline for riboseq analysis and other than a couple of slight changes (just some salmon commands), it is working fine until the riboprof section, where this error is being display…
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Hello, before writing further, I want to say that I have read through previous related open/closed issues but could not find a suitable answer.
The problem: rather different mapping rates depending…
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Hi there,
I am trying to test scikit-ribo on some yeast ribo-seq data we have just generated.
When running scikit-ribo-build.py I get the following error:
`File "/home/drew/anaconda3/envs/scikit…
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Hi,thank you for your great tools for m6A modification analysis,i got a problem when i use the ‘countReads' function.I got this error " Error in countReads(samplenames = spnames, gtf = "./mm10.ncbiRef…