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katerinakazantseva
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strainy
Graph-based assembly phasing
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amplicon ONT sequencing of 740 known strains
#85
weishwu
opened
2 weeks ago
2
FASTA to GFA
#84
juanjo255
closed
1 month ago
4
Refactoring
#83
katerinakazantseva
closed
1 month ago
0
merge main->ref
#82
katerinakazantseva
closed
1 month ago
0
Issue with Running Strainy - ModuleNotFoundError: No module named 'flye.six.moves'
#81
GuillermoIllan
opened
2 months ago
3
Low coverage - output files missing
#80
brambloemen
closed
6 months ago
4
add logs for reference unitigs
#79
atabeerk
closed
7 months ago
0
Filter edges
#78
atabeerk
closed
8 months ago
0
Perfix relax
#77
atabeerk
closed
8 months ago
0
Relax clustering
#76
katerinakazantseva
closed
8 months ago
0
Transform stage occasionally crashes with >16 threads
#75
Mikes92
opened
8 months ago
22
Disable graph vis
#74
atabeerk
closed
9 months ago
0
Output GFA missing unitigs in S lines
#73
atabeerk
opened
1 year ago
6
Catch gfapy NonUniqueError when inserting new lines
#72
atabeerk
closed
1 year ago
0
make -C submodules/Flye error
#71
Penny2023James
closed
6 months ago
4
gfapy.error.NotFoundError
#70
mallen6
closed
1 year ago
2
Parallel transform
#69
atabeerk
closed
1 year ago
0
Consensus clipping
#68
atabeerk
closed
1 year ago
0
implement clipping of low coverage consensus parts
#67
atabeerk
closed
1 year ago
0
Test cons main
#66
katerinakazantseva
closed
1 year ago
0
Consensus clipping
#65
katerinakazantseva
closed
1 year ago
0
add clusters
#64
katerinakazantseva
closed
1 year ago
0
Katya dev
#63
katerinakazantseva
closed
1 year ago
0
Revert "single cluster unitig"
#62
katerinakazantseva
closed
1 year ago
0
single cluster unitig
#61
katerinakazantseva
closed
1 year ago
0
set chunksize for load balancing
#60
katerinakazantseva
closed
1 year ago
0
Lenient mismatch scoring
#59
katerinakazantseva
closed
1 year ago
0
Cache the contents of the file, not the path
#58
atabeerk
closed
6 months ago
1
main to overlap
#57
katerinakazantseva
closed
1 year ago
0
merge main to overlap
#56
katerinakazantseva
closed
1 year ago
1
Split long unitigs
#55
atabeerk
closed
1 year ago
0
Split long unitigs
#54
atabeerk
closed
1 year ago
0
Phased bam error
#53
jsgounot
closed
1 year ago
6
Skip / downsample unitigs with very high coverage
#52
mikolmogorov
closed
7 months ago
1
Update transform.py
#51
katerinakazantseva
closed
1 year ago
0
Might get some speed up using Pyston
#50
jelber2
opened
1 year ago
0
replace samtools merge with -convert to sam, append, convert back to …
#49
atabeerk
closed
1 year ago
0
Import flye as python package
#48
mikolmogorov
closed
7 months ago
1
Remove fasta parameter
#47
atabeerk
closed
1 year ago
0
Test
#46
katerinakazantseva
closed
1 year ago
0
rename
#45
katerinakazantseva
closed
1 year ago
0
Revert "rename"
#44
katerinakazantseva
closed
1 year ago
0
rename
#43
katerinakazantseva
closed
1 year ago
0
Flye submodule
#42
atabeerk
closed
1 year ago
0
Clean up code + terminal output
#41
mikolmogorov
closed
1 year ago
3
Speed-up and parallel transform
#40
mikolmogorov
closed
1 year ago
0
Automatically split very long graph unitigs
#39
mikolmogorov
closed
1 year ago
0
gfapy merging fails occasionally
#38
mikolmogorov
closed
1 year ago
1
No need for extra fasta file input (-f argument)
#37
mikolmogorov
closed
1 year ago
0
Split `transform.py`
#36
mikolmogorov
closed
1 month ago
0
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