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eblerjana
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pangenie
Pangenome-based genome inference
MIT License
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Haploid Haplotype Reconstruction
#88
gsc74
opened
1 month ago
1
TEST
#87
eblerjana
closed
2 months ago
0
Wrong kmer abundance peak
#86
baozg
opened
2 months ago
4
Questions about pangenie results
#85
YuChrming
opened
2 months ago
1
Large SV segments (>100kb) caused the filtering out of all SVs in a large region (1Mb) after running vcfbub
#84
porkfan
closed
2 months ago
2
line not working in apptainer
#83
ptrebert
opened
3 months ago
0
Issue with VCF (does not represent a pangenome graph)
#82
ChiaraF32
closed
3 months ago
1
variation number
#81
zhengluo-lz
opened
3 months ago
1
Genotype personalized pangenome
#80
Han-Cao
closed
4 months ago
4
GraphBuilder: number of paths is limited to 254 in current implementation.
#79
cgroza
opened
4 months ago
7
fix: Update catch2
#78
xiamaz
opened
5 months ago
0
Update catch2 to support glibc >2.33
#77
xiamaz
opened
5 months ago
0
lower SNP overlap rate between call set and GATK results.
#76
ttian627
opened
6 months ago
2
How to handle N bases in VCF-input files
#75
isaamael
opened
7 months ago
2
pangenie-index failed: std::runtime_error, "Hash full"
#74
leleory
closed
6 months ago
3
pangenome-graph-from-assemblies not working for latest Pangenie
#73
LYC-vio
opened
7 months ago
1
since alleles contain undefined nucleotides
#72
jwli-code
opened
7 months ago
1
what is the role of unique kmers of overhang?
#71
Arya-bioinformatics
opened
8 months ago
1
The different sample with different lines in vcf
#70
ld9866
opened
8 months ago
3
How to retain only the STRUCTURE VARIATION for pangenie
#69
ld9866
closed
8 months ago
2
The best method to use the genotyping-pipelines and the vcf-merging to quality control
#68
ld9866
closed
9 months ago
4
The vcfhub remove about 300Mb data in a 2.5Gb genome
#67
ld9866
closed
9 months ago
5
.cereal cannot be opened
#66
dmjask
closed
4 months ago
1
Error for PanGenie-index
#65
dtx282000
opened
9 months ago
3
Using PanGenie for non-directed acyclic graph and pair-end reads
#64
yihangs
opened
10 months ago
1
Phasing
#63
JosephLalli
opened
10 months ago
1
Feature request: support kff input files
#62
JosephLalli
opened
10 months ago
4
A lot of multi-allelic SV variations in the genotype result file
#61
ld9866
closed
10 months ago
2
ployploid allele frequency
#60
sdws1983
closed
10 months ago
1
Adapting Pangenie for Non-Human Species Genome Inference
#59
LeoHongboWANG
opened
11 months ago
3
How to translate the MC vcf result to pangenie pipeline
#58
ld9866
closed
10 months ago
2
Some variants in input VCF file were failed to genotype
#57
JanMiao
opened
1 year ago
3
GraphBuilder: Found invalid genotype. (Minigraph cactus vcf)
#56
duelstrobe
closed
1 year ago
2
what(): GraphBuilder: number of paths is limited to 254 in current implementation.
#55
YiBenqiu
opened
1 year ago
1
Question about pangenome-graph-from-assemblies
#54
YuChrming
opened
1 year ago
1
Package 'jellyfish-2.0', required by 'virtual:world', not found
#53
liukeweiaway
opened
1 year ago
3
Failed to allocate 17333333368 bytes of memory
#52
YiBenqiu
closed
1 year ago
2
Interleaved fastq files
#51
ValentinaPeona
opened
1 year ago
3
Can PanGenie genotype inversions?
#50
Sunhh
opened
1 year ago
2
Assertion error when running PanGenie with my VCF file
#49
LeoHongboWANG
opened
1 year ago
1
Truncated genotyping
#48
Sunhh
closed
1 year ago
4
Reuse chrom_to_variants dict in convert-to-biallelic.py
#47
Han-Cao
opened
1 year ago
0
PanGenie installation by conda
#46
lx-1011
closed
1 year ago
4
Can we start from a plain VCF called to pan-sequence
#45
chau-mau
opened
1 year ago
2
Genotyping with breakpoint deviations
#44
biozzq
opened
1 year ago
1
Update README.md
#43
eblerjana
closed
1 year ago
0
command `PanGenie-index` has wrong cli-usage info
#42
wjwei-handsome
opened
1 year ago
1
Install from source error in v3.0
#41
wjwei-handsome
closed
1 year ago
5
How to get the correct reference file and variants file
#40
DiWangShePi
closed
5 months ago
2
Reuse path-segments.fasta
#39
Han-Cao
opened
1 year ago
5
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