Augustus
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Gaius-Augustus
Genome annotation with AUGUSTUS
Dear Author, I used filterBam to filter bam files for only high coverage and identity mapped reads. However, for different minCover and minID, I have the same coverage depth using...
I have an Ubuntu 20.04 and followed the package install instructions at https://github.com/Gaius-Augustus/Augustus/blob/master/docs/INSTALL.md#HTSlib bam2wig fails to compile. (Not a problem for me personally, but probably annoying for other users) Message:...
In https://github.com/Gaius-Augustus/Augustus/blob/master/docs/RUNNING-AUGUSTUS.md It says: > Explanation of the file format of the extrinsic.cfg file. > The gff/gtf file containint the hints must contain somewhere in the last column an entry...
Hi, there! Sorry to disturb you again. I have tried the pig genome for lots of days. but it no very well .Would you please help me ? Thanks so...
I have used e-training to establish my own species model. However, according to the manual "Incorporating RNA-Seq into AUGUSTUS", it uses blat2hints.pl getting the information of intron. I don't know...
Masking
I would like to know how AUGUSTUS treats masked regions on genome. I have a softmasked genome and I did a prediction on it, but I do not know if...
Hi I got the following error, can you help me ? CMD: optimize_augustus.pl --species="arabidopsis" --rounds=5 --cpus=0 --kfold=0 --onlytrain=training.gb.onlytrain genes.gb.train.train > optimize.out must be at least two fold cross validation at...
Hi, there These days I used the Augustus to deno predict the gene structures, but there were some problems. I want to annotate the genes about the pig and I...
Dear authors, I just installed the latest commit (ed0cb90 - Sep 14, 2020) of Augustus, following the recommendations for the use of Braker. (I already implemented the changes for Bio.Alphabet)...
The `CodonEvoTest.CodonEvoRateReadWrite` test currently fails on macOS: ``` [ RUN ] CodonEvoTest.CodonEvoRateReadWrite codonevo_unittest.cc:55: Failure The difference between gsl_matrix_get(Q0, 0, 0) and -1.11186 is 0.38031300000000012, which exceeds 1e-6, where gsl_matrix_get(Q0, 0,...
