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Input:
```
##gff-version 3
##sequence-region Chr5 113921 116411
Chr5 Araport11 gene 113921 116411 . - . ID=AT5G01280;Name=AT5G01280;Note=GPI-anchored protein;cu…
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Hi,
Bakta is a superb annotation tool, so thanks for all the hard work! However, there does not appear to be a way to include any annotation scores (e.g. evalue, percent identity, etc) in the outpu…
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I've been unable to find any documentation or threads about whether GTF and GFF3 files are interchangeable with the -gtf flag. I would guess they are if kallisto is using an external library to rea…
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Hi, when I try to load a gff3 file using arrow:
arrow annotations load_gff3 --test "Uncinocarpus reesii 1704 [Aug 06, 2014]" "Uncinocarpis_reesei.gff"
I get the following error message:
Trace…
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Native AUGUSTUS GFF3 format is lacking correct unique ID= field for CDS features (they should have an incremented number for each gene), most other features except gene, transcript and CDS completely …
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It would be convenient if JBrowse could render spliced alignments from tabix-indexed GFF3 files using the CIGAR string in the GFF3 Gap attribute (e.g., produced from gmap's gff3_match_est format), rat…
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The error message is:
```
Loading sequence file...
Allocating Memory...
Initializing data structures...
Computing TR Model Statistics...
Scanning Sequence 5...Traceback (most recent call last):
…
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Basically the title. Here is the weird lines from the gff3 file...
```
15593 EDTA repeat_region -2 3598 . ? . ID=repeat_region_23903;Name=TE_00012818;Classification=…
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Hello Alex,
The annotation of my reference genome is in gff3 format. For genome indexing, I used:
STAR --runMode genomeGenerate --runThreadN 40 --genomeDir genome \
--genomeFastaFiles r…
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Currently, repeatmasker_wrapper has
```
Cores Allocated 16
Memory Allocated (MB) 59392
```
A single chromosome works but a whole VGP haplotype fails OOM.
Currently trying to get a RAM grap…