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Vini2
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phables
🫧🧬 From fragmented assemblies to high-quality bacteriophage genomes
https://phables.readthedocs.io/
MIT License
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[Fix] Pin numpy version to <2.0.0
#55
Vini2
closed
1 week ago
0
[Feature request] Resolve genomes from linear components with multiple sources and sinks
#54
Vini2
closed
3 weeks ago
0
marker.hmm file broken
#53
nikolasbasler
closed
3 weeks ago
4
[BUG] UnicodeDecodeError
#52
ZarulHanifah
closed
2 months ago
3
Adding dockerfile
#51
linsalrob
closed
2 months ago
0
No case3 is resolved
#50
xtc2002
opened
2 months ago
7
Empty edges.fasta.frag.faa file despite correct input
#49
jonye123
closed
3 weeks ago
18
[Feature request] Replace gurobi with lpsolve/pyglpk
#48
Vini2
opened
3 months ago
0
Possible orphaned paired read for long reads?
#47
ZarulHanifah
closed
2 weeks ago
8
[BUG] MissingOutputException in rule koverage
#46
ivelsko
closed
2 months ago
8
[Feature request] Handling mapping temporary files directory
#45
pdec
opened
3 months ago
1
koverage env in a conda strick channel priority
#44
pdec
closed
3 months ago
2
[BUG] curl failed to verify the legitimacy of the server
#43
pdec
closed
3 months ago
1
Hi, I am trying to run phables and I am encountering issues. though new in bioinformatics.
#42
Evapatrick
closed
4 months ago
2
[Feature request] Reduced format representation of the genomes
#41
Vini2
closed
4 months ago
0
[Feature request] Generate component-wise assembly graphs
#40
Vini2
opened
4 months ago
0
[Feature request] Add prefix parameter to name phage genomes
#39
Vini2
closed
4 months ago
0
Generating assembly graph
#38
ellasiera
closed
4 months ago
2
Update koverage.yaml
#37
beardymcjohnface
closed
5 months ago
0
[BUG] When Running Phables
#36
MJNT1999
closed
3 months ago
14
DEV: Add long-read support and fix #8
#35
Vini2
closed
5 months ago
0
Right GFA file to use?
#34
GeoMicroSoares
closed
6 months ago
4
[Feature request] Better documentation
#33
rdenise
closed
6 months ago
1
File pattern of paired ends
#32
shenwei356
closed
5 months ago
2
Fixes for #29 and #30 hopefully
#31
beardymcjohnface
closed
9 months ago
0
[BUG] Error when running "phables run"
#30
ilnamkang
closed
6 months ago
8
Error when copying system default config using phables install
#29
kalonji08
closed
3 months ago
7
[Feature request] resolve linear genomes with DTRs
#28
Vini2
closed
6 months ago
0
[Feature request] Add postprocessing steps
#27
Vini2
closed
11 months ago
0
DEV: misc fixes
#26
beardymcjohnface
closed
11 months ago
0
MissingOutputException in rule run_phables in file ../phables-1.0.0/lib/python3.10/site-packages/phables/workflow/rules/phables.smk
#25
minhtrung1997
closed
11 months ago
2
phables test failed !
#24
minhtrung1997
closed
11 months ago
4
bugfix for koverage rerunning
#23
beardymcjohnface
closed
1 year ago
0
DEV: New version of Koverage to report mean for coverm wrapper
#22
beardymcjohnface
closed
1 year ago
0
[Feature request] Add multi-threading for gurobi solver
#21
Vini2
closed
11 months ago
0
koverage and metasnek updates
#20
beardymcjohnface
closed
1 year ago
0
[Feature request] Resolve linear phage components
#19
Vini2
closed
11 months ago
1
[BUG] If a read non paired is found Phables crashed
#18
rdenise
closed
1 year ago
2
[BUG] Job fails when no phage genomes are found
#17
Vini2
closed
1 year ago
0
DEV: fix for run_combine_cov; reentrancy fix for scan_phrogs
#16
beardymcjohnface
closed
1 year ago
1
Merge pull request #14 from Vini2/develop
#15
Vini2
closed
1 year ago
0
GIT: Merge develop to main
#14
Vini2
closed
1 year ago
1
DEV: Fixes for coverm replacement; should now output all contigs
#13
beardymcjohnface
closed
1 year ago
0
[Feature request] fastg to gfa converter
#12
Vini2
opened
1 year ago
1
replace coverm
#11
beardymcjohnface
closed
1 year ago
0
[Feature request] Output information of terminal repeats
#10
Vini2
closed
1 year ago
0
[Feature request] Provide BAM files to CoverM
#9
Vini2
closed
1 year ago
0
[Feature request] Support for long-read data
#8
Vini2
closed
5 months ago
2
[Feature request] Clean PHROG scan temporary files
#7
Vini2
closed
1 year ago
0
merge preprocessing and run
#6
beardymcjohnface
closed
1 year ago
0
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