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Gaius-Augustus
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BRAKER
BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eukaryotic genomes
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error message with Braker and gmes_petap.pl
#764
LennWhy
opened
7 months ago
2
Update README.md
#763
KatharinaHoff
closed
7 months ago
0
--softmasking_off
#762
TCHeaven
closed
7 months ago
1
Question regarding augustus.hints.gff
#761
fuesseler
closed
7 months ago
2
Cannot resolve accession ( 404 ) when trying to use local files
#760
simonharnqvist
closed
6 months ago
3
Re-annotate RefSeq genome annotation using Braker3
#759
ARW-UBT
opened
7 months ago
1
compleasm is broken on 18.04 with python 3.69
#758
cement-head
closed
7 months ago
1
braker.codingseq contains coding sequences with introns?
#757
juanjo255
closed
6 months ago
1
ERROR in file /opt/BRAKER/scripts/braker.pl at line 3818
#756
LliliansCalvo
opened
7 months ago
3
Braker3 parameters for non cannonical splice cite
#755
y-yoshioka1109
opened
7 months ago
2
Genemark fails when running RNAseq + Proteing test data
#754
Nautilus96
closed
7 months ago
2
with rnaseq_fq_ids and busco_lineage, compleasm output in wrong dir
#753
jbh-cas
closed
7 months ago
4
Compleasm_to_hints error
#752
SamCT
closed
7 months ago
10
gmst same coords for begin and end for several start or stop codons
#751
jbh-cas
opened
8 months ago
0
Possibly use pasa to update and improve braker3 results?
#750
sunnycqcn
opened
8 months ago
1
Error in braker.pl at line 5473, .gm_key is up to date, but GeneMark-ETP still doesn't work
#749
jkmh2
closed
8 months ago
2
Stuck Augustus etraining by large genome
#748
TkNiw
closed
7 months ago
3
The potential repeat sequences bias of BRAKER3
#747
leon945945
opened
8 months ago
1
brker3 image is missing the #30 bugfix from compleasm
#746
epaule
closed
8 months ago
2
braker3 setup.py not found
#745
MaximePolicarpo
closed
7 months ago
2
GeneMark-ETP stderr output
#744
mengyuan09876
opened
8 months ago
3
ERROR: in file /opt/BRAKER/scripts/braker.pl at line 3614 Genome file /work/FAC/mod_GCA_030586385.1_ASM3058638v1_genomic.fa does not exist.
#743
LliliansCalvo
opened
8 months ago
1
Augustus/bin/augustus not executable on this machine
#742
ld9866
closed
7 months ago
2
How to evaluate the predict result?
#741
sunnycqcn
opened
8 months ago
1
Gene number annotated from braker is less than expectation
#740
leon945945
opened
8 months ago
2
Compleasm
#739
KatharinaHoff
closed
8 months ago
0
The bug of stringtie2utr
#738
YouxinZhao
opened
8 months ago
2
Incompatible options used. The skipGeneMarkETP option is activated, this cannot be used together with --rnaseq_sets_ids, --rnaseq_sets_dirs, prot_seq, or --hints together with --gmetp_results_dir. When skipGeneMarkETP is used, hints are either collected from a previous GeneMarkETP run (when used with --gmetp_results_dir) or given directly with --hints. See the documentation for more information on how to skip GeneMark-ETP.
#737
jwli-code
closed
7 months ago
7
aug_ab_initio error!
#736
sunnycqcn
closed
8 months ago
4
An error of stringtie2utr.py
#735
YouxinZhao
closed
9 months ago
5
Duplicate BUSCOs
#734
paul-bio
closed
7 months ago
9
What is the best way to resume braker pipeline if it stops unexpectedly?
#733
jackie-duang
closed
7 months ago
2
docker error: bamtools not installed.
#732
leon945945
closed
7 months ago
6
Error for transcript ID is not unique
#731
YouxinZhao
closed
8 months ago
4
updating compleasm branch
#730
KatharinaHoff
closed
9 months ago
0
renamed helpMod.pm to helpMod_braker.pm
#729
KatharinaHoff
closed
9 months ago
0
Updating compleasm branch
#728
KatharinaHoff
closed
9 months ago
0
Utr from stringtie
#727
KatharinaHoff
closed
9 months ago
0
In braker annotation what are sequence ids start with jg, g and m1-g?
#726
mudithekanayake
closed
9 months ago
1
gtf gff
#725
pengyan19
closed
9 months ago
5
Cannot create temporary file and failed to exectute gmes_petap.pl
#724
dmacguigan
closed
9 months ago
3
stringtie2utr generates multiple five_prime_UTRs and three_prime_UTRs within a gene
#723
spoonbender76
closed
9 months ago
6
IsoSeq trascriptome data
#722
ardy20
closed
7 months ago
1
* in Arthropoda.fa sequences and "Assuming this is not a protein fasta file"
#721
spoonbender76
closed
7 months ago
6
Augustus step not working, empty files
#720
JulieRamMar
opened
9 months ago
5
GeneMark ETP crashes if there are no mapped reads in the bamfile
#719
TomHarrop
opened
9 months ago
2
Reduced BUSCO score with protein and rna input
#718
Kat0610
closed
9 months ago
1
gmhmmp Segmentation fault
#717
huangl07
opened
9 months ago
1
Problems in RUNNING GENEMARK-EX
#716
ChuanzhengWei
closed
9 months ago
8
Problems with GeneMark-EX
#715
Antennaria
closed
9 months ago
1
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