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Hello
I am trying to run miso but I am getting this error after having installed it successfully
`debian@username:~$ miso`
Traceback (most recent call last):
File "/home/debian/.local/bin/mis…
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Hi Zhenyu,
I noticed in the script S02.umi.process.one.sh, you used minimap2 for mapping to the reference genome and then used salmon for quantification. Additionally, it seems that for the referen…
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For some reason WormBase DR lines differ from all other databases, with extra information for isoforms
DR WormBase; F32A5.4a; CE01274; WBGene00017970; -. [Q19948-1]
DR WormBase; F32A5.4b; CE32…
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Current loading procedure:
- load mRNA from fasta
- load peptide from fasta, link to mRNA via regexp
Problems with this strategy:
- we don't know locations of genes on scaffolds
- we can't prop…
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Hello!
First of all, thank you for sharing IsoLamp with us.
I see that IsoLamp was created for the targeted sequencing, but I have a small newbie question. I was wondering if it would be possibl…
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Hi there,
I want to find out what protocol I should follow when annotating a genome with short and long read RNA-Seq (nanopore) and protein data.
In this issue https://github.com/Gaius-Augustus…
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Hi everyone,
These are the tasks needed to finalize the switch to emitting GPAD/GAF2.0.
(I tentatively assigned people but not 100% about the assignments):
- [ ] @LiNiMGI to add an example GPAD…
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Hello,
Thanks for the great tool.
I have downloaded a .gb file in a similar way to article_examples/0_download_the_plasmid.py
I have a gene with several isoforms and each isoform is summarize…
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Hello, I am an avid user of the rMATS tool and have found many splicing sites and events. Now I have obtained alternative spling events of the differences between the two groups of data. For example, …
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I have a sample with FLT3-ITD and another with a different ITD, and FLAIR doesn't seem to recognize mutant transcripts as distinct isoforms. I used trust_ends and included "inconsistent" reads from th…