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pangenome
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pggb
the pangenome graph builder
https://doi.org/10.1038/s41592-024-02430-3
MIT License
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bioconda is not a problem anymore (for now) [skip ci]
#417
AndreaGuarracino
closed
2 days ago
0
Revert wfmash 0.14.0, update seqwish, vcflib
#416
AndreaGuarracino
closed
2 days ago
0
The question about `vg` version of pggb
#415
zwh82
closed
1 week ago
5
update odgi/smoothxg
#414
AndreaGuarracino
closed
2 weeks ago
0
update wfmash
#413
AndreaGuarracino
closed
3 weeks ago
0
Invalid argument on log file
#412
vikshiv
opened
3 weeks ago
3
update vg
#411
AndreaGuarracino
closed
1 month ago
0
add a fall back version
#410
AndreaGuarracino
closed
1 month ago
0
updated link example pangenomes
#409
nsmlzl
closed
1 month ago
1
Add pggb version to its own log
#408
ASLeonard
closed
1 month ago
2
PGGB takes more than 96 hours of walltime on HPC
#407
kiratalreja3
opened
1 month ago
1
How to handle plasmid sequences for bacterial assemblies
#406
UpalabdhaD
opened
1 month ago
0
PanSN requires a number as haplotype_id
#405
AndreaGuarracino
closed
1 month ago
0
Follow up on issues with Singularity
#404
cjfields
opened
2 months ago
2
wfmash to speed up
#403
OZTaekOppa
closed
2 days ago
1
wfmash v0.16.0
#402
ekg
closed
3 months ago
0
update vcfbub and vg, and a few other tools
#401
AndreaGuarracino
closed
3 months ago
0
Unable to generate giraffe indexes for PGGB graph
#400
KopalliV
closed
2 days ago
1
PGGB singularity vg deconstruct not recognizing sample prefix
#399
SimonaSecomandi
opened
4 months ago
1
mismatched line lengths at line 3 within sequence
#398
Ahmad-40
closed
2 days ago
1
Be smoother with the ANI filter in the mapping step
#397
AndreaGuarracino
closed
5 months ago
0
fix workflow by updating data table
#396
AndreaGuarracino
closed
5 months ago
0
Resolving the `'Illegal option --'` error
#395
AndreaGuarracino
closed
5 months ago
0
Recommended practices for downstream analyses
#394
agolicz
opened
5 months ago
0
erro about paf2net.py
#393
unavailable-2374
closed
5 months ago
2
update wfmash/odgi/smoothxg
#392
AndreaGuarracino
closed
5 months ago
0
refresh documentation [skip ci]
#391
AndreaGuarracino
closed
6 months ago
0
only fail if non-installed programs are required
#390
ASLeonard
closed
6 months ago
1
check installed tools and report issues
#389
AndreaGuarracino
closed
6 months ago
0
run without errors and outputs
#388
Gon1976
closed
6 months ago
7
fix odgi viz underflow
#387
AndreaGuarracino
closed
6 months ago
0
update wfmash/seqwish/smoothxg/odgi
#386
AndreaGuarracino
closed
6 months ago
0
Memory size required to build large genomes
#385
Lucio-Yang
opened
6 months ago
14
explicit separator for vg 1.40.0
#384
AndreaGuarracino
closed
6 months ago
0
For aligning chromosomes of different species over 100MYA or div is it better to use .masked files?
#383
Isoris
closed
2 days ago
2
the effect of `n_mappings`
#382
subwaystation
opened
7 months ago
0
update smoothxg
#381
subwaystation
closed
7 months ago
0
update smoothxg
#380
AndreaGuarracino
closed
7 months ago
0
pggb: option requires an argument -- 'i'
#379
RobStr12
closed
1 month ago
1
what dose "consensus path" generated with parameter -Q mean
#378
yipukangda
closed
2 days ago
3
A null vcf file
#377
dudududu12138
closed
7 months ago
3
multiqc 1.21, bcftools 1.19
#376
subwaystation
closed
7 months ago
0
Setting the poa-length-target(s)
#375
jonahcullen
closed
2 days ago
1
Command terminated by signal 6
#374
yeeus
closed
7 months ago
4
container creation failed
#373
yeeus
closed
7 months ago
0
add option for filenames with param values
#372
AndreaGuarracino
closed
8 months ago
0
update wfmash/smoothxg/odgi
#371
AndreaGuarracino
closed
8 months ago
0
computational efficiency of pggb
#370
yihangs
closed
2 days ago
3
`vg deconstruct` 1.40.0 (again) and sort decomposed VCF file
#369
AndreaGuarracino
closed
8 months ago
0
update smoothxg (abPOA)
#368
AndreaGuarracino
closed
9 months ago
0
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