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EI-CoreBioinformatics
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reat
Robust Eukaryotic Annotation Toolkit
https://reat.readthedocs.io/en/latest/
MIT License
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SNAP gene predictor training fails.
#46
MmasterT
opened
9 months ago
0
Transcriptome workflow, mikado crashes at serialise step
#45
elisagold
closed
1 year ago
1
Helixer
#44
MmasterT
opened
1 year ago
0
Issue 33
#43
gemygk
closed
1 year ago
0
install failed
#42
yuzhenpeng
closed
2 years ago
11
Add specific prefix to mikado runs within REAT
#41
swarbred
opened
2 years ago
0
How to cite REAT in a paper
#40
dadrasarmin
closed
2 years ago
2
Issue 37
#39
gemygk
closed
2 years ago
0
cromwell issue - exceeds configured limit of 1000000
#38
swarbred
opened
2 years ago
3
Change the hardcoded chunk values in EVM
#37
gemygk
closed
2 years ago
0
fix: switch to csi index #32
#36
gemygk
closed
2 years ago
0
Suggestions for improving prediction workflow documentation on https://reat.readthedocs.io/
#35
dadrasarmin
opened
2 years ago
12
generate_augustus_test_and_train default --target_mono_exonic_pct
#34
swarbred
opened
2 years ago
2
Reat prediction protein alignment improvements
#33
swarbred
opened
2 years ago
0
switch to csi index
#32
swarbred
closed
2 years ago
0
Fix minimap index issue with large genomes #30
#31
gemygk
closed
2 years ago
4
Error + Fix minimap issue mapping to large genomes
#30
swarbred
closed
2 years ago
0
Reat Homology - Runtime, hardware requirement estimation, verbose, log
#29
dadrasarmin
closed
2 years ago
4
expose resources for call-OptimiseAugustus
#28
swarbred
closed
2 years ago
5
Fix typo affecting exonhints.augustus issue #25
#27
ljyanesm
closed
2 years ago
1
Better control for non best scoring transcripts
#26
ljyanesm
closed
2 years ago
0
BUG typo affecting exonhints.augustus
#25
swarbred
closed
2 years ago
0
Need more instructions to setup REAT in Conda
#24
sanyalab
closed
2 years ago
11
Error providing external augustus config
#23
swarbred
closed
2 years ago
0
gff_to_aug_hints error with empty file
#22
swarbred
closed
2 years ago
0
call-LengthChecker - presence of extra base (stop codon) affects classifcation
#21
swarbred
closed
2 years ago
8
bug call-SubdivideSequence (minor bug, major effect)
#20
swarbred
closed
2 years ago
1
Bug soft / hard masking
#19
swarbred
closed
2 years ago
0
RM hints set strand to "."
#18
swarbred
closed
2 years ago
0
Repeat priority not read from input agustus priority file
#17
swarbred
closed
2 years ago
0
Update prediction module
#16
ljyanesm
closed
2 years ago
0
generate summary stats file for reat homology
#15
swarbred
closed
2 years ago
0
Prediction module
#14
ljyanesm
closed
2 years ago
0
gff_to_evm script to create EVM spec GFF files
#13
gemygk
closed
2 years ago
0
Enables resource selection on sanitise tasks
#12
ljyanesm
closed
3 years ago
0
Tags spaln queries as protein only
#11
ljyanesm
closed
3 years ago
0
Codon table defaults
#10
ljyanesm
closed
3 years ago
0
Enable missing CLI options
#9
ljyanesm
closed
3 years ago
0
Deduplicate transcripts
#8
ljyanesm
closed
3 years ago
0
Fixes #5
#7
ljyanesm
closed
3 years ago
0
Develop
#6
ljyanesm
closed
3 years ago
0
call-FailMerge merging pass files rather than fail files
#5
swarbred
closed
3 years ago
0
Integrate latest dev branch
#4
ljyanesm
closed
3 years ago
0
Merge updates
#3
ljyanesm
closed
3 years ago
0
Refactoring and some extra features
#2
ljyanesm
closed
3 years ago
0
Integrates xspecies results using mikado
#1
ljyanesm
closed
3 years ago
0