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oschwengers
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bakta
Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
GNU General Public License v3.0
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Numpy.core.getlimits.py UserWarning: The value of the smallest subnormal for <class 'numpy.float32'> type is zero.
#347
oschwengers
opened
1 week ago
0
New version of bakta v1.10 fails to run annotations
#346
Dx-wmc
closed
1 week ago
2
updated environment.yml and Dockerfile
#345
mjfos2r
closed
1 week ago
2
Replace Circos by pyCirclize
#344
oschwengers
closed
1 week ago
0
Bump AMRFinderplus dependency to v4.0.3
#343
oschwengers
closed
2 weeks ago
0
Issue with Dockerfile file
#342
pamelacamejom
closed
1 week ago
1
Wrong truncation labeling of partial CDS which are truncated at both sides
#341
oschwengers
closed
3 weeks ago
0
Different expected and conceptual translations for some partial CDS
#340
tpillone
closed
3 weeks ago
4
introduce bakta_io output file reconstruction
#339
oschwengers
closed
1 month ago
0
Refactor internal data structure
#338
oschwengers
closed
1 month ago
0
Error: sequence should be at least 100000 characters
#337
Jigyasa3
closed
1 week ago
1
how to obtain the sequences of crispr and tRNA in bakta output files?
#336
YoungerRen
closed
1 month ago
2
dears
#335
YoungerRen
closed
1 month ago
0
Fix common INSDC submission errors on feature products
#334
oschwengers
closed
1 month ago
0
Revise truncated pseudo attributes
#333
oschwengers
closed
1 month ago
0
Fix import of user-provided CDS spanning sequence edges
#332
oschwengers
closed
1 month ago
0
Introduce feature inference TSV output file
#331
oschwengers
closed
1 month ago
0
Errors in submitting annotations to NCBI
#330
kevinmyers
closed
1 month ago
5
gene= missing for some copies of the gene but present in others
#329
ebraginngd
closed
1 week ago
2
Incorrect locus tag incrementation
#328
NonAggressiveHail
closed
2 months ago
1
Introduce user-provided hmms
#327
oschwengers
closed
1 month ago
0
Presumed GFF3/Gbff user regions file format error when replicon table is provided
#326
oschwengers
closed
2 months ago
0
eggnog annotation
#325
jotech
opened
2 months ago
2
Error on GenBank file with CompoundLocation overlapping sequence origin
#324
aekazakov
closed
1 month ago
4
translation-table code 25
#323
ndombrowski
closed
2 months ago
3
Increase verboisity for invalid --proteins options
#322
NonAggressiveHail
closed
2 months ago
3
Old tRNAscan-SE in containers and environments
#321
fischuu
closed
2 months ago
0
No pseudogenes being detected
#320
flashton2003
closed
2 months ago
4
AttributeError: module 'pyrodigal' has no attribute 'OrfFinder'
#319
cuongngh
closed
1 week ago
6
Issue/Error in tRNAscan-SE running
#318
hackerzone85
opened
2 months ago
4
Missing genes in both faa files
#317
EdderDaniel
closed
2 months ago
5
APIs get jobStatus ERROR, although jobs started, initiated and run.
#316
cuongngh
closed
2 months ago
2
cmmscan for rRNA identification is probably configured incorrectly and does NOT use CM-only mode
#315
richardstoeckl
closed
3 months ago
2
option to include scores in bakta output
#314
jvera888
closed
1 month ago
4
conda install did not install bakta_db
#313
JCSzamosi
closed
1 week ago
3
Question regarding summary stats generation
#312
fischer-hub
closed
1 month ago
10
tRNAscan-SE issue on HPC
#311
Sylvia-li
closed
2 months ago
4
.conda/envs/bakta/lib/python3.10/site-packages/bakta/main.py", line 150, in main genome['features'][bc.FEATURE_T_RNA] = t_rna.predict_t_rnas(genome, contigs_path)
#310
davidmadariaga
closed
1 week ago
2
Option for trusted HMMs
#309
StefDiV
closed
1 month ago
2
Addition of custom codon table/improve 'rare' start codons prediction
#308
DanielleMStevens
opened
4 months ago
2
Issue with trnascan-SE and bakta v1.9.4
#307
rubmc97
closed
4 months ago
1
reproducibility - amrfinderplus-db
#306
Juke34
closed
3 months ago
4
Bakta web version ignores translation table change
#305
AggressiveHayBale
closed
4 months ago
1
(Re-)Generating bakta outputs from the JSON only
#304
oschwengers
closed
1 month ago
0
Skip certain genes in user-provided regions
#303
oschwengers
closed
4 months ago
0
Fix CRISPR parser
#302
oschwengers
closed
4 months ago
0
fix(create_cdss): Handle different translation tables in meta mode
#301
ohickl
closed
4 months ago
1
CRISPR prediction assertion error
#299
ohickl
closed
4 months ago
1
pyrodigal has no attribute 'OrfFinder'
#298
sebibarLE
closed
4 months ago
11
pyhmmer not found
#297
samlipworth
closed
4 months ago
14
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