pangenome odgi issues - Githubissues

pangenome / odgi

Optimized Dynamic Genome/Graph Implementation: understanding pangenome graphs

https://doi.org/10.1093/bioinformatics/btac308

MIT License

196 stars 40 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

Adding annotations via gff

#597 buchanri opened 3 days ago
0
syri + msyd + vg: want to use odgi drawing

#596 2benaszq closed 1 week ago
6
Update README.md

#595 Overcraft90 closed 2 weeks ago
0
Update README.md

#594 Overcraft90 closed 3 weeks ago
1
[Feature] Enable GPU to accelerate odgi-layout with massive speedup. Build with a flag `USE_GPU`

#593 tonyjie closed 3 weeks ago
5
Extracting node coordinates on paths

#592 bslbgg closed 4 weeks ago
1
check the GFA while reading it

#591 AndreaGuarracino closed 2 months ago
0
odgi build Assertion '!has_node(id)' failed

#590 cwatt opened 2 months ago
0
missing reference path after odgi build

#589 jespindel01 closed 3 months ago
0
Issue with ODGI sort and viz

#588 MatteoSebastianelli closed 3 months ago
2
validate segfaults if path contains a non-existant node

#587 ASLeonard closed 2 months ago
2
Mistake in GFA links?

#586 dirkjanvw opened 3 months ago
0
`odgi flip -r/--ref-flips`: flip with respect to a set of paths (used as references)

#585 AndreaGuarracino closed 3 months ago
1
Odgi unchop performance for large graphs

#584 sivico26 opened 4 months ago
4
fix variable type to avoid wrong lengths in the untangled PAF

#583 AndreaGuarracino closed 4 months ago
0
Include STL so steps_of_handle works

#582 dpryan79 closed 4 months ago
1
odgi untangle multiple reference file - potential bug

#581 Catriona-Miller opened 4 months ago
3
'odgi sort -O' may change Node ID ?

#580 zhangyixing3 closed 4 months ago
1
odgi heaps

#579 jwli-code closed 4 months ago
1
odgi stats: -S per default

#578 subwaystation closed 5 months ago
0
`odgi extract` somehow keeps the node which needs to be removed

#577 yeeus opened 5 months ago
2
Segmentation fault (core dumped) when `odgi extract`

#576 yeeus closed 5 months ago
1
Odgi viz: visualize haplotypes

#575 SimonaSecomandi closed 5 months ago
1
Feature request: Keep path names after 'extract'

#574 joehagmann opened 5 months ago
0
`odgi viz`: longer path names by default; `odgi positions`: emit all positions

#573 AndreaGuarracino closed 6 months ago
0
Remove Complex Region of the Graph Pangenome

#572 zhangyixing3 opened 6 months ago
5
`odgi draw`: put labels on top of everything in the SVG output

#571 AndreaGuarracino closed 7 months ago
0
fix bug to avoid underflows in `odgi viz`

#570 AndreaGuarracino closed 7 months ago
0
add uncalled bases to non-ref-nodes

#569 AndreaGuarracino closed 8 months ago
0
fix outgoing links of the last node

#568 AndreaGuarracino closed 8 months ago
0
odgi layout - sorting and node id order

#567 ScottMastro closed 7 months ago
2
Upgrade pybind11 to current head

#566 JervenBolleman closed 8 months ago
1
`odgi paths`: private/core/accessory sequence classification

#565 AndreaGuarracino closed 8 months ago
0
`odgi paths ... --non-reference-ranges`: emit last non-ref path range, if any

#564 AndreaGuarracino closed 8 months ago
0
exporting all possible closed circular path in fasta from a gfa file

#563 splaisan opened 8 months ago
1
converting gfa from flye assembler fails with docker odgi

#562 splaisan closed 8 months ago
4
bed file

#561 ZiliaMR closed 2 months ago
3
Odgi squeeze doesn't recognize my GFAv1 files

#560 MarionPerrier closed 9 months ago
2
`odgi extract`: avoid duplicated subpaths

#559 AndreaGuarracino closed 9 months ago
0
`odgi draw`: add node sparsification factor for SVG output

#558 AndreaGuarracino closed 9 months ago
3
`odgi draw`: add labels in the SVG output

#557 AndreaGuarracino closed 9 months ago
1
write highlights over black/grey lines in SVG

#556 AndreaGuarracino closed 9 months ago
0
`odgi draw`: fix SVG output

#555 AndreaGuarracino closed 9 months ago
0
update version of checkout in ci

#554 kojix2 closed 9 months ago
1
bring odgi to macos-aarch64

#553 subwaystation opened 9 months ago
0
Tutorial: Sort and layout power ups.

#552 subwaystation closed 9 months ago
0
HPRC graph conversion issues

#551 adadiehl closed 8 months ago
7
How to get the Minigraph-Cactus path in odgi

#550 ld9866 closed 10 months ago
0
Trailing comma on P lines after pruning with `odgi prune`

#549 sivico26 opened 10 months ago
5
Sorting graph with `-Y` option triggers "Assertion `idx < this->size()' failed" error

#548 sivico26 opened 10 months ago
12