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Hi,
I tried to found SVs in a phased assembly genome of HG002, and found some insertion and deletion corresponding to ref (GRCh37) are from different chromosom. For example, an ins on chr1-34044-34…
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Hello Developers
We have tried to use Busco to test the completeness of an Australian wild rice genome before and after annotation with Braker3 (with RNA-seq support from the leaves). The genome qu…
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Dear @panchyni @shinhanshiu
Hello there! This is a very good tool that suits my needs very well and I look forward to referencing it later. I'm having a RepeatMasker problem while running the test…
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Hi
I want to annotate an animal genome. First I created a pan-TE library manually according to this article (https://doi.org/10.1093/molbev/msac080). Then I run RepeatMasker (sensitive mode) and th…
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Hi, thanks for providing this helpful pipeline! I installed earlgrey3.2 with conda. My run died at the TEstrainer step with the following error message:
>
Splitting run 1
Initial trf check for …
hy09 updated
10 months ago
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Copied from https://github.com/rmhubley/RepeatMasker/issues/50#issuecomment-766803634 by @Tiramisu023:
> ```
> RepeatMasker version 4.1.1
> WUBlastSearchEngine::setPathToEngine( /public2/users/li…
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Dear,
I'm trying to use the Capture function in Oligo to design probes against the mouse genome mm10. I'm using the following code:
`python design.py Capture -f GRCm38.primary_assembly.genome.…
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Hello,
I got the following error:
The command was:
bedtools intersect -a /mnt/nvme0n1p1/ifengel/ChimeraTE/projects/chimera_test/tmp/TE_file.bed -wa -nonamecheck -b /mnt/nvme0n1p1/ifengel/C…
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Hi,
I use this pipeline to create genome alignment file with local mode. Here is my script
`make_chains.py human macAss hg38.2bit macAss.2bit --project_dir human_macAss --executor_queuesize 40`
…
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Hello,
I was trying to use Earl Gray for my genome but at the end the end the execution was halted due to error below:
FileNotFoundError: [Errno 2] No such file or directory: '/home/edelab/pacbi…