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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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gbff.gz vs gbff only
#289
survivor77
closed
1 day ago
2
Difference between Persistent, Core (exact, soft), Shell, Cloud, and Accessory (exact, soft) Gene Families
#288
ShuyiF
opened
6 days ago
4
Fix empty metadata tag in annotation file
#287
JeanMainguy
closed
1 week ago
0
remove trailing whitespaces
#286
fchapoton
opened
1 week ago
0
Error annotating pangenome
#285
seajane
opened
2 weeks ago
5
fix an error in the formula to calculate chao displayed on the ucurve…
#284
ggautreau
closed
1 week ago
0
Improved Memory Efficiency for `ppanggolin fasta` Command
#283
JeanMainguy
closed
5 days ago
1
Merge dev branch into master to release version 2.1.2
#282
JeanMainguy
closed
2 weeks ago
0
Formula for calculating chao could be wrong
#281
luenna
opened
2 weeks ago
1
Population must be a sequence
#280
yl030
closed
2 weeks ago
3
Can't use external clustering: "Exception: Representative gene has not been set"
#279
ericolo
closed
3 weeks ago
7
Fix error when using an external clustering
#278
JeanMainguy
closed
2 weeks ago
1
Improve tile plot figure
#277
JeanMainguy
closed
3 weeks ago
0
Clustering issue
#276
camilae86
opened
1 month ago
3
PPanGGOLiN version 2.1.1 - Failed building new version
#275
seajane
opened
1 month ago
6
Fixing some ruff warnings
#274
fchapoton
closed
2 weeks ago
1
Fix random.sample call to be compatible with python 3.12
#273
JeanMainguy
closed
3 weeks ago
2
Merge dev branch into master to release version 2.1.1
#272
JeanMainguy
closed
1 month ago
0
Tiny doc fix and version update for release
#271
JeanMainguy
closed
1 month ago
0
Let PPanGGOLIN keep running if partition step fails
#270
JeanMainguy
opened
1 month ago
0
Print a warning log when partition step fails
#269
JeanMainguy
closed
1 month ago
0
Error from Pyton 3.12
#268
Nilad
opened
1 month ago
6
Segmentation Fault at Partition
#267
seajane
opened
1 month ago
2
Handle case where a spotless pangenome is used in projection
#266
JeanMainguy
closed
1 month ago
0
Write the gene families by ordering the cluster based on their size.
#265
jpjarnoux
closed
1 month ago
0
ValueError: max() iterable argument is empty
#264
frdel1
closed
1 month ago
5
Non-deterministic clustering (possibly due to multi-threading)
#263
ktmeaton
closed
1 month ago
4
ValueError: The gene family has not beed associated to a partition.
#262
frdel1
closed
1 month ago
7
Fix config outputs in workflow commands when set in config file
#261
JeanMainguy
closed
1 month ago
0
conda installs old version
#260
IsabelFE
closed
1 month ago
2
a few minor code changes
#259
fchapoton
closed
1 month ago
2
some typos in source
#258
fchapoton
closed
1 month ago
2
fix some typos in docs
#257
fchapoton
closed
2 months ago
1
Handle Aragorn gene that exceed contig length
#256
JeanMainguy
closed
2 months ago
0
Add support for python 3.11 and 3.12
#255
JeanMainguy
closed
2 months ago
1
Annotation error: gene coordinates exceeding contig length
#254
MilanAdd
closed
1 month ago
2
rarefaction curve : Population must be a sequence
#253
emorinrae
closed
2 months ago
3
'ascii' codec
#252
yl030
opened
2 months ago
2
Add gene name info in the Tile Plot
#251
JeanMainguy
closed
2 weeks ago
2
Merge Dev Branch into Master to Release Version 2.1.0
#250
JeanMainguy
closed
2 months ago
0
Fix overlap and frameshift gene in GFF file
#249
jpjarnoux
closed
2 months ago
0
Development for PANORAMA project
#248
jpjarnoux
closed
2 months ago
0
Fix metadata related issues
#247
JeanMainguy
closed
2 months ago
0
Fix proksee module
#246
JeanMainguy
closed
3 months ago
0
Ignoring weird tRNA from Aragorn
#245
JeanMainguy
closed
3 months ago
1
Improve metadata management
#244
JeanMainguy
closed
3 months ago
0
ppanggolin projection: ValueError: The region is already with a different spot.
#243
frdel1
closed
2 months ago
2
Add and read the representative gene of the family when read cluster.
#242
jpjarnoux
closed
2 months ago
0
Manage chevron in GFF start and stop
#241
JeanMainguy
closed
3 months ago
1
Read correctly coordinates on multiple lines for GBFF
#240
jpjarnoux
closed
3 months ago
0
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