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40 Open 88 Closed
40 Open 88 Closed
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Issues list

What --cpus CPUS means
#152 opened Nov 9, 2024 by xiekunwhy
add_ngs_coverage.py error when there are chromosome/ctg name like ptg000636l:1-52000 ptg000636l:52001-83281
#151 opened Nov 7, 2024 by xiekunwhy
Tensorflow installation incompatible with requirements
#149 opened Nov 5, 2024 by MatteoSchiavinato
1
over-prediction small contigs
#147 opened Oct 30, 2024 by mhooykaas
3
Can Helixer's predicted annotation results be merged and organized using MAKER or EvidenceModeler?
#146 opened Oct 30, 2024 by GLking123
model file cannot download
#144 opened Oct 12, 2024 by xiaoxinbioinfo
1
Micro exons with single bases or two
#138 opened Jul 31, 2024 by ke-shi
2
Question: How to find more smaller genes
#135 opened Jul 2, 2024 by srobb1
2
When I run python Helixer.py, met: "ImportError: cannot import name 'where' from 'certifi' (unknown location"
#134 opened Jun 20, 2024 by kuangzhuoran
1
OSError: [Errno 9] Bad file descriptor
#133 opened Jun 10, 2024 by ZhangPY-bioinformatics
1
sqlite3.DataError: string or blob too big data format
#132 opened Jun 9, 2024 by arslan9732
2
ModuleNotFoundError: No module named 'tensorflow.keras'
#130 opened Jun 7, 2024 by xiekunwhy
2
nohup not helping in Helixer.py, run is stopped when connection is lost
#128 opened May 12, 2024 by alexandrosbousios
5
gff3 specification data format
#127 opened May 10, 2024 by nhartwic v0.3.5
1
Low busco scores for transcripts called on large Cupressus genome (10Gb) with helixer
#126 opened Apr 19, 2024 by Bios4Biol
2
boolean index did not match indexed array along dimension 0
#125 opened Apr 12, 2024 by Wenfei-Xian
2
Some tensorflow warning/error messages when running Helixer via Singularity
#123 opened Apr 11, 2024 by spoonbender76
3
Fail early and clearly on fasta files with duplicate IDs usability
#120 opened Mar 22, 2024 by alisandra
@alisandra
Add Helixer to conda
#104 opened Jul 19, 2023 by xiekunwhy
Make --predict-phase not only the default but the only option.
#103 opened Jul 16, 2023 by alisandra
Switch from h5 to native Keras models (or think about it)
#102 opened Jul 16, 2023 by alisandra
1
[Question] Can this be used broadly for all microeukaryotes (e.g., fungi, protists, etc)?
#100 opened Jun 3, 2023 by jolespin
8
Masked or non-masked genomes
#99 opened May 30, 2023 by GoliczGenomeLab
2
change transition matrix to only include correct transitions from geenuff
#90 opened Feb 2, 2023 by alisandra
record seed / random state
#89 opened Jan 24, 2023 by alisandra
@felicitas215
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