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labstructbioinf
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pLM-BLAST
Detection of remote homology by comparison of protein language model representations
https://toolkit.tuebingen.mpg.de/tools/plmblast
MIT License
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5
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The output results are incomplete
#58
daisykuma22
opened
1 week ago
3
[QUESTION] what is the "score" reported by pLM-BLAST?
#57
DaRinker
opened
1 month ago
5
Memory requirements
#56
dc2211
closed
1 month ago
1
fix csv saving
#55
Argusmocny
closed
1 month ago
0
emb files point to wrong direction
#54
dc2211
closed
1 month ago
2
[QUESTION/SUGGESTION] Determining realistic use cases and limitations
#53
DaRinker
closed
1 month ago
1
[ERROR] "embeddings.py: error: unrecognized arguments: -proc 4"
#52
DaRinker
closed
2 months ago
2
Duplicate indexes in a CSV file generated by the embeddings.py script
#51
staszekdh
closed
1 month ago
0
Databases link
#50
Darius-Kazlauskas
closed
2 months ago
1
Dev
#49
Argusmocny
closed
3 months ago
0
47 return results of pre screening only
#48
Argusmocny
closed
4 months ago
0
Return results of pre-screening only
#47
staszekdh
closed
3 months ago
3
Add runcache
#46
Argusmocny
closed
5 months ago
0
question about filling scoring matrix
#45
Chiyasa
closed
6 months ago
3
Truncated alignments from self comparison
#44
staszekdh
opened
6 months ago
0
adjust kernel size
#43
Argusmocny
closed
7 months ago
0
kernel_size not adjusted automatically
#42
staszekdh
closed
7 months ago
0
fix performence issue
#41
Argusmocny
closed
8 months ago
0
rollback path threshold criteria
#40
Argusmocny
closed
8 months ago
0
upd
#39
Argusmocny
closed
8 months ago
0
Reduce duplicates
#38
Argusmocny
closed
8 months ago
0
Reduce duplicates
#37
MiTRonGTE
closed
9 months ago
0
add cuda support for `plmblast.py`
#36
MiTRonGTE
opened
10 months ago
0
Small character default parameter mkdir bug fix
#35
MiTRonGTE
closed
11 months ago
0
Small character bug fix
#34
MiTRonGTE
closed
11 months ago
0
Dev workers
#33
staszekdh
closed
11 months ago
0
Update pLM-BLAST on the MPI Toolkit
#32
staszekdh
closed
7 months ago
0
Re-implement graphical display of database search results
#31
staszekdh
opened
1 year ago
3
Redundant alignment shift
#30
KYQiu21
opened
1 year ago
2
Sequence names not in plmblast.py output
#29
seanrjohnson
closed
11 months ago
4
Too large embedding files when using --asdir
#28
staszekdh
closed
11 months ago
2
Multi-GPU support in embeddings.py
#27
staszekdh
opened
1 year ago
3
18 example scan of a small genome
#26
MiTRonGTE
closed
1 year ago
0
24 allow plmblastpy to use directories as query argument
#25
Argusmocny
closed
1 year ago
0
allow `plmblast.py` to use directories as `query` argument
#24
Argusmocny
closed
1 year ago
0
plmblast.py script doesn't work when following example
#23
seanrjohnson
closed
9 months ago
16
dbtofile.py doesn't work for databases created from fasta files
#22
seanrjohnson
closed
1 year ago
1
fix error for very small sequences in chunk cosine similarity
#21
Argusmocny
closed
1 year ago
0
ERROR in function filtering_db
#20
staszekdh
closed
1 year ago
0
UnboundLocalError: local variable 'outfile' referenced before assignment
#19
Citugulia40
closed
1 year ago
9
example scan of a small genome
#18
Argusmocny
closed
1 year ago
0
Multi query feature
#17
Argusmocny
closed
1 year ago
1
13 feature request faster and more robust database construction
#16
Argusmocny
closed
1 year ago
0
#13 feature request faster and more robust database construction
#15
Argusmocny
closed
1 year ago
0
added support for multiple queries
#14
MiTRonGTE
closed
1 year ago
0
FEATURE REQUEST: faster and more robust database construction
#13
DaRinker
closed
1 year ago
3
ERROR when using GPU: "ValueError('gpu is not available, but device is set to gpu and what now?')
#12
DaRinker
closed
1 year ago
1
Error when making custom database "IndexError: list index out of range"
#11
DaRinker
closed
1 year ago
1
"Multi-query input not implemented"
#10
DaRinker
closed
1 year ago
15
Errors on creating a target dataset and searching against it.
#9
maovshao
closed
1 year ago
6
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