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rhysnewell
/
aviary
A hybrid assembly and MAG recovery pipeline (and more!)
GNU General Public License v3.0
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Fix vamb being excluded from dastool
#227
AroneyS
opened
17 hours ago
0
Switch memory multiplier to 1000
#226
AroneyS
closed
1 day ago
4
actions: test-aviary: Attempt fix. (#221) (for dev, last one was on main)
#225
wwood
closed
6 days ago
0
Increase base vamb runtime to 48h
#224
AroneyS
closed
6 days ago
0
assemble/recover: Require users to specify coassembly or not.
#223
wwood
opened
1 week ago
0
aviary: Update --build help message.
#222
wwood
opened
1 week ago
1
actions: test-aviary: Attempt fix.
#221
wwood
closed
6 days ago
1
config.yaml: Remove this extraneous file.
#220
wwood
closed
2 days ago
0
--no-coassembly flag?
#219
wwood
opened
1 week ago
1
recommended way to build conda envs
#218
wwood
opened
2 weeks ago
2
Bio module not found in script
#217
wwood
opened
2 weeks ago
1
spades: Update to 4.
#216
wwood
opened
2 weeks ago
3
Add pyproject.toml.
#215
wwood
closed
1 week ago
1
spades issues due to setuptools not specified in the env file
#214
michoug
opened
1 month ago
2
Merge dev to main
#213
rhysnewell
closed
2 months ago
0
Fix checkm2 env
#212
AroneyS
closed
2 months ago
0
Contig size parameter not working properly
#211
dylancronin
opened
3 months ago
1
Error with Vamb
#210
aljazdzy
opened
4 months ago
1
conda package doesn't have pplacer_threads option?
#209
CJREID
opened
4 months ago
2
refine_metabat2 running out of memory
#208
CJREID
opened
4 months ago
8
Update annotation.smkwith new GTDB DB URL
#207
JamesRH
closed
2 months ago
2
Hybrid spades assembly question
#206
aleuQUT
opened
5 months ago
2
Installation docs need to specify correct version of GTDB to download (max R214)
#205
smdabdoub
opened
6 months ago
3
--coassemble flag inquiry
#204
lcamVz
opened
6 months ago
0
merging v0.9.1
#203
rhysnewell
closed
6 months ago
2
fix: batch checks read type correctly
#202
rhysnewell
closed
6 months ago
0
convert rule spades_assembly to a python script
#201
YibiChen
closed
6 months ago
12
fix tmpdir being set from base command
#200
AroneyS
closed
6 months ago
22
fix: batch submission now does not require user to write to script first
#199
rhysnewell
closed
7 months ago
3
How to run aviary with a batch file
#198
s-junguy
closed
7 months ago
5
chore: Update CITATION.cff
#197
rhysnewell
closed
8 months ago
0
release v0.9.0
#196
rhysnewell
closed
8 months ago
0
Complete error
#195
Josue-B-Navarrete
closed
8 months ago
12
CheckM Rosella file not found
#194
sternp
opened
10 months ago
3
Error with CheckM2 and Rosella
#193
ronjasan
closed
10 months ago
9
Adding binning-only flag, simplify recipes
#192
rhysnewell
closed
8 months ago
20
Mamba error creating Rosella env
#191
AroneyS
closed
10 months ago
11
aviary recover stop after bin refinement / pipeline stalling indefinitely at GTDBtk step
#190
bglindner
closed
10 months ago
3
Loosen same-group permissions for folders and logs
#189
AroneyS
closed
10 months ago
1
Snakemake doesn't respect umask value
#188
AroneyS
closed
10 months ago
1
das_tool: Use script not shell.
#187
wwood
closed
11 months ago
1
skipping metabat
#186
wwood
closed
11 months ago
2
binning only
#185
wwood
closed
8 months ago
1
Doco updates
#184
wwood
closed
10 months ago
0
Running aviary directly from a git checkout
#183
wwood
closed
10 months ago
2
qc not generating a readset
#182
wwood
closed
8 months ago
1
independent singlem runs
#181
wwood
closed
8 months ago
0
--use-conda versus --conda-frontend
#180
bglindner
closed
11 months ago
1
threading issues and rosella version
#179
rhysnewell
closed
11 months ago
2
singlem threads and 16
#178
wwood
closed
11 months ago
2
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