-
Hello,
I am trying to use BRAKER to annotate an insect genome. The GeneMark-ET step seems to succeed, but there is no output produced by Augustus and I cannot find the reason of that problem.
Be…
-
Hi,
I am running BRAKER with UTR prediction, and I have spit my RNA-seq into plus and minus strands as recommended here: https://www.biostars.org/p/92935/
My command is:
`braker.pl --species=…
-
I'm trying the BRAKER v2.1.0, but it stops at the GeneMark-ET step.
Here's the exact error:
error, file not found ~/src/gm_et_linux_64/gmes_petap/parse_ET.pl: set.out
error on call: ~/src/gm_et_li…
-
Hi.
I am trying to make intron hints from multiple RNA-seq data set with augustus-v3.3.1, following this wiki (http://bioinf.uni-greifswald.de/bioinf/wiki/pmwiki.php?n=IncorporatingRNAseq.Tophat).
…
-
Hi folks,
Apologies if I've missed something dumb during installation here, but I'm a bit stuck. I'm running cat on a slurm system, but using a single machine just to try and minimise complications…
-
I was trying to test my BRAKER installation using `test1.sh` in directory `example/tests`. The braker command is
```sh
braker.pl --genome=../genome.fa --bam=../RNAseq.bam --softmasking --workingdi…
-
Hi!
I am running FunGAP with these parameters:
`python fungap.py --output_dir R19_annotation/ -1 DRR111063_1.fastq -2 DRR111063_2.fastq --genome_assembly R19_CRRNanoimproved3.fa --augustus_species…
-
I have been trying to install ufits but I get the following:
`==> Installing ufits from nextgenusfs/tap`
`==> Downloading https://github.com/nextgenusfs/ufits/archive/0.7.4.tar.gz`
`###############…
-
The standard JSONP file available under [https://www.dwd.de/DWD/warnungen/warnapp/json/warnings.json](url) doesn't provide information at the cities level, only district level.
The cities level inf…
-
#### I'm trying to do following to assemble a diatom:
(1) Kneaddata/Trimmomatic for my transcript reads;
(2) Mapping the reads to my unmasked genomes;
(3) Using RNA-Spades for the transcript as…