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Visual Studio project files, and likely others, can potentially include sources and PDBs for dependencies. While some packages have PDBs, none have sources. This is understandable, since typically if …
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Hi,
After running TESmall on mouse small RNA samples, I get a counts summary file that has a lot of repeated entries specially for the tRNAs, this will hamper proper DESeq2 functioning. Is there a wa…
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**Are you using the latest release?**
`funannotate v1.8.12`
**Describe the bug**
The logfile for funannotate predict seemed to show that everything ran ok. But the outputs (.protein.fa and .gff) …
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Hi, I have freshly installed funannotate through conda, then removed augustus by using "conda remove --force-remove augustus". After that I locally installed augustus 3.3 through apt-get and redirecte…
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Hi Felipe,
Could you help with this issue I've got when running bacannot o my genomes, everything went just fine except the report step. I tried with my old genomes (which were successful at the time…
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Hi @adamewing,
Again thank you for providing this package. I am working on 8 different samples and trying seqplot. In order to generate a .tsv file, I create a .txt file which contains 8 samples na…
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Hello,
I am trying to understand dnaPipeTE outputs. Specifically I am trying to figure out how are the numbers in Counts.txt calculated. When I look into reads_per_component_and_annotation file and…
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Hi Rengang,
I encountered several problems when using TEsort.
I found a lot of mixtures in my $.rexdb-plant.cls.tsv result file. What kind of TEs does it belong to?
According to th…
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Hi!!
I would like to run TEtranscripts but my species of interest doesn't have a UCSC model yet. I have a low quality genome assembly and a very high quality transcriptome assembly for this species. …
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**Are you using the latest release?**
funannotate v1.8.13
**Describe the bug**
I have set "-other_gff compreh_init_build.gff3:10" It was recognised by funannotate, was set source to other_pred1. …