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108 Open 131 Closed
108 Open 131 Closed
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Issues list

CAT should handle internal exon expansions enhancement
#320 opened Aug 1, 2024 by diekhans
transMapPsl doesn't show base mismatches in browser
#319 opened Jun 19, 2024 by diekhans
2
Unable to run annotation pipeline. Target h2tg000040l block 10438982-10444550 exceeds sequence length 10441754
#318 opened Apr 13, 2024 by smkumaill
CAT can't find gene duplications
#317 opened Mar 30, 2024 by DhakadPankaj
Concensue bigGenePred column name incorrect
#315 opened Mar 9, 2024 by diekhans
@ph09
1
CAT should not use Ensembl transcript names
#309 opened Feb 23, 2024 by diekhans
@ph09
CAT consensus track needs filters
#308 opened Feb 23, 2024 by diekhans
@ph09
Got exit code 1 (indicating failure) from job _toil_worker cgp file:/Comparative-Annotation-Toolkit/Darmor_A01_qwe/toil/augustus_cgp/jobStore kind-cgp/instance-cf_rpblx.
#307 opened Jan 8, 2024 by jwli-code
1
CAT T2T CHM13 GFF3 have gene_name mismatches between gene and transcript records
#306 opened Dec 11, 2023 by diekhans
Error at filter_transmap.py
#305 opened Dec 6, 2023 by cbcunningham
2
TransMapPsl failed
#303 opened Oct 16, 2023 by DhakadPankaj
Potential enhancements
#302 opened Aug 17, 2023 by ph09
Improve docker installation and docs
#301 opened Aug 17, 2023 by ph09
Error when running CAT with --augustus-cgp mode
#296 opened Jul 7, 2023 by peter-d-fields
12
CAT fails on cleanup when there are .nfs files
#295 opened Jul 6, 2023 by diekhans
@ph09
1
ANNOTATION in the config file
#294 opened Jun 30, 2023 by GeorgeBGM
3
Capture stderr with Luigi
#292 opened Apr 24, 2023 by ph09
SF3B3 gene annotation missing in gff3
#286 opened Feb 28, 2023 by diekhans
1
Adjacent "exons" in GTF
#285 opened Feb 28, 2023 by diekhans
CAT on AWS
#284 opened Feb 20, 2023 by larryns
query regarding --ref-genome parameter
#283 opened Feb 19, 2023 by philge
Custom Augustus training parameters
#278 opened Jan 11, 2023 by 1Wencai
incorrect trackDb is generate
#275 opened Nov 18, 2022 by diekhans
test_data error
#274 opened Oct 9, 2022 by song984888
Singularity
#273 opened Aug 24, 2022 by marcovth
ProTip! Exclude everything labeled bug with -label:bug.