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labgem
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PPanGGOLiN
Build a partitioned pangenome graph from microbial genomes
https://ppanggolin.readthedocs.io
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Hanging processes
#300
ericolo
opened
1 week ago
4
len(contig) == NoneType
#299
StefanFrankBio
opened
2 weeks ago
3
Merge dev branch into master to release version 2.2.0
#298
JeanMainguy
closed
2 weeks ago
0
Update version to 2.2.0
#297
JeanMainguy
closed
2 weeks ago
0
Adjust logging and fix unwanted progress bar
#296
JeanMainguy
closed
2 weeks ago
0
Add linter to PPanGGOLIN code base
#295
JeanMainguy
closed
2 weeks ago
0
Contig 1 already in genome
#294
matiasWanntorp
opened
2 weeks ago
1
TypeError: Population must be a sequence. For dicts or sets, use sorted(d).
#293
ericolo
opened
4 weeks ago
4
ValueError: The gene family has not been associated to a partition.
#292
ericolo
opened
4 weeks ago
4
Filter non ASCII character
#291
JeanMainguy
closed
3 weeks ago
0
Handling of partial genes in PPanGGOLiN
#290
JeanMainguy
closed
1 month ago
0
gbff.gz vs gbff only
#289
survivor77
closed
1 month ago
2
Difference between Persistent, Core (exact, soft), Shell, Cloud, and Accessory (exact, soft) Gene Families
#288
ShuyiF
closed
1 month ago
4
Fix empty metadata tag in annotation file
#287
JeanMainguy
closed
1 month ago
0
remove trailing whitespaces
#286
fchapoton
closed
1 month ago
2
Error annotating pangenome
#285
seajane
closed
2 weeks ago
6
fix an error in the formula to calculate chao displayed on the ucurve…
#284
ggautreau
closed
1 month ago
0
Improved Memory Efficiency for `ppanggolin fasta` Command
#283
JeanMainguy
closed
1 month ago
1
Merge dev branch into master to release version 2.1.2
#282
JeanMainguy
closed
2 months ago
0
Formula for calculating chao could be wrong
#281
luenna
closed
2 weeks ago
2
Population must be a sequence
#280
yl030
closed
2 months ago
3
Can't use external clustering: "Exception: Representative gene has not been set"
#279
ericolo
closed
2 months ago
7
Fix error when using an external clustering
#278
JeanMainguy
closed
2 months ago
1
Improve tile plot figure
#277
JeanMainguy
closed
2 months ago
0
Clustering issue
#276
camilae86
closed
2 weeks ago
4
PPanGGOLiN version 2.1.1 - Failed building new version
#275
seajane
opened
2 months ago
6
Fixing some ruff warnings
#274
fchapoton
closed
2 months ago
1
Fix random.sample call to be compatible with python 3.12
#273
JeanMainguy
closed
2 months ago
2
Merge dev branch into master to release version 2.1.1
#272
JeanMainguy
closed
2 months ago
0
Tiny doc fix and version update for release
#271
JeanMainguy
closed
2 months ago
0
Let PPanGGOLIN keep running if partition step fails
#270
JeanMainguy
opened
2 months ago
0
Print a warning log when partition step fails
#269
JeanMainguy
closed
2 months ago
0
Error from Pyton 3.12
#268
Nilad
closed
2 weeks ago
6
Segmentation Fault at Partition
#267
seajane
opened
2 months ago
2
Handle case where a spotless pangenome is used in projection
#266
JeanMainguy
closed
2 months ago
0
Write the gene families by ordering the cluster based on their size.
#265
jpjarnoux
closed
2 months ago
0
ValueError: max() iterable argument is empty
#264
frdel1
closed
2 months ago
5
Non-deterministic clustering (possibly due to multi-threading)
#263
ktmeaton
closed
2 months ago
4
ValueError: The gene family has not beed associated to a partition.
#262
frdel1
closed
2 months ago
7
Fix config outputs in workflow commands when set in config file
#261
JeanMainguy
closed
3 months ago
0
conda installs old version
#260
IsabelFE
closed
3 months ago
2
a few minor code changes
#259
fchapoton
closed
2 months ago
2
some typos in source
#258
fchapoton
closed
2 months ago
2
fix some typos in docs
#257
fchapoton
closed
3 months ago
1
Handle Aragorn gene that exceed contig length
#256
JeanMainguy
closed
3 months ago
0
Add support for python 3.11 and 3.12
#255
JeanMainguy
closed
3 months ago
1
Annotation error: gene coordinates exceeding contig length
#254
MilanAdd
closed
2 months ago
2
rarefaction curve : Population must be a sequence
#253
emorinrae
closed
3 months ago
3
'ascii' codec
#252
yl030
closed
2 weeks ago
6
Add gene name info in the Tile Plot
#251
JeanMainguy
closed
2 months ago
2
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