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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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refine_metabat2 running out of memory
#208
CJREID
opened
2 weeks ago
8
Update annotation.smkwith new GTDB DB URL
#207
JamesRH
opened
1 month ago
1
Hybrid spades assembly question
#206
aleuQUT
opened
1 month ago
2
Installation docs need to specify correct version of GTDB to download (max R214)
#205
smdabdoub
opened
1 month ago
3
--coassemble flag inquiry
#204
lcamVz
opened
1 month ago
0
merging v0.9.1
#203
rhysnewell
closed
1 month ago
2
fix: batch checks read type correctly
#202
rhysnewell
closed
2 months ago
0
convert rule spades_assembly to a python script
#201
YibiChen
closed
2 months ago
12
fix tmpdir being set from base command
#200
AroneyS
closed
2 months ago
22
fix: batch submission now does not require user to write to script first
#199
rhysnewell
closed
2 months ago
3
How to run aviary with a batch file
#198
s-junguy
closed
2 months ago
5
chore: Update CITATION.cff
#197
rhysnewell
closed
3 months ago
0
release v0.9.0
#196
rhysnewell
closed
3 months ago
0
Complete error
#195
Josue-B-Navarrete
closed
3 months ago
12
CheckM Rosella file not found
#194
sternp
opened
5 months ago
1
Error with CheckM2 and Rosella
#193
ronjasan
closed
5 months ago
9
Adding binning-only flag, simplify recipes
#192
rhysnewell
closed
3 months ago
20
Mamba error creating Rosella env
#191
AroneyS
closed
6 months ago
11
aviary recover stop after bin refinement / pipeline stalling indefinitely at GTDBtk step
#190
blindner6
closed
6 months ago
3
Loosen same-group permissions for folders and logs
#189
AroneyS
closed
6 months ago
1
Snakemake doesn't respect umask value
#188
AroneyS
closed
6 months ago
1
das_tool: Use script not shell.
#187
wwood
closed
6 months ago
1
skipping metabat
#186
wwood
closed
6 months ago
2
binning only
#185
wwood
closed
3 months ago
1
Doco updates
#184
wwood
closed
6 months ago
0
Running aviary directly from a git checkout
#183
wwood
closed
6 months ago
2
qc not generating a readset
#182
wwood
closed
3 months ago
1
independent singlem runs
#181
wwood
closed
3 months ago
0
--use-conda versus --conda-frontend
#180
blindner6
closed
7 months ago
1
threading issues and rosella version
#179
rhysnewell
closed
7 months ago
2
singlem threads and 16
#178
wwood
closed
7 months ago
2
singlem: Update to 0.16.0.
#177
wwood
closed
7 months ago
3
megahit: Specify -m in bytes.
#176
wwood
closed
7 months ago
0
cff-update: Update to v0.8.3.
#175
wwood
closed
7 months ago
1
threads
#174
wwood
closed
7 months ago
7
Add SingleM metapackage downloading
#173
AroneyS
closed
7 months ago
2
v0.8.3 release to main
#172
rhysnewell
closed
7 months ago
0
Set pplacer threads
#171
AroneyS
closed
7 months ago
1
`data/short_reads.fastq.gz` is empty: test_short_read_recovery integration test fails on dev commit 51516da
#170
AroneyS
closed
7 months ago
4
SyntaxWarning
#169
AroneyS
closed
7 months ago
1
Update rosella to v0.5.0
#168
rhysnewell
closed
7 months ago
45
attempt to fix #166 by interleaving reads correctly
#167
rhysnewell
closed
8 months ago
6
Skip QC produces concatenated (not interleaved) short-reads
#166
AroneyS
closed
7 months ago
9
error using aviary configure
#165
rikander
closed
8 months ago
9
Error using -r flag
#164
Ge0rges
closed
7 months ago
4
SPAdes not running during hybrid assembly mode
#163
hisatakeishida
closed
7 months ago
18
citations: Improve them.
#162
wwood
closed
7 months ago
4
update main to v0.8.2
#161
rhysnewell
closed
8 months ago
0
v0.8.2
#160
rhysnewell
closed
8 months ago
0
singlem: Restrict to 0.13.2. Fixes #157.
#159
wwood
closed
8 months ago
1
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