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Dear Brian,
I have a question related to the usage of trimmomatic parameter when performing denovo transcriptome assembly. Upon the usage of the trimmomatic function, it provides the following outp…
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Gather data into `data` directory on Poseidon:
- [x] Jgi protein models (Phytozyme gene models) for *P. antarctica* (CCMP1374) and *P. globosa* (Pg-g)
* https://genome.jgi.doe.gov/portal/pages/dy…
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see #136 for an example description. Doesn't have to be much, but ideally should include the version of the genome assembly and what the annotations are/where they are from for a genome, and what is …
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Hi,
I can successfully get grouper to run on the example dataset but when I try it on my own I get an error 'ValueError: operands could not be broadcast together with shapes (3126384,) (6274562,) ' W…
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Hi, Brain
I am sorry to bother you, I have a small question which I can not solved.
My trinity version is 2.12.0. When I run at second phase, the 'ReadsToTranscripts' script always error.
This is…
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I assembled my long-read transcriptome files through rna bloom. I was wondering what the best way to analyze it is? I want to retrieve information like reads per gene, see how it matches with my refer…
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When trying to use RiboCode_onestep I come across this error below:
> Finished reading bam file!
> Traceback (most recent call last):
> File "/usr/local/bin/RiboCode_onestep", line 10, in
> …
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Hi,
I got the following error message when running abundance_estimates_to_matrix.pl. As far as I understand, it seems that I have 'NA' instead of '0' when a given transcript in absent in my table but…
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Hi Hollie,
I am currently working through an issue I noticed between using different aligners for aligning our A. pul heatwave samples to the reference transcriptome. Here is my workflow:
[sampl…
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1-3pm. Proposed topic: nanopore. Nominate papers here.