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ComparativeGenomicsToolkit
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cactus
Official home of genome aligner based upon notion of Cactus graphs
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Can I use cactus to compare multiple Poaceae plant genomes?
#1487
liuyt57
opened
1 month ago
2
update to vg v1.60.0
#1486
glennhickey
closed
1 month ago
0
Haplotype sampling docs - required indexes for vg giraffe
#1484
CormacKinsella
closed
1 month ago
6
plug in path normalizer
#1483
glennhickey
closed
2 months ago
0
[WIP] s/SegAlign/KegAlign/g
#1482
glennhickey
closed
2 months ago
1
Turn node chopping on for all output by default
#1481
glennhickey
closed
2 months ago
0
How to obtain the alignment of two hap for an individual
#1480
xuxingyubio
opened
2 months ago
3
Turn vcf left-shifting off by default.
#1479
glennhickey
closed
2 months ago
0
fix recent regression where --mgMemory option crashes pipeline
#1478
glennhickey
closed
2 months ago
0
same position error in vcf output file
#1477
shin0727
closed
2 months ago
1
Assertion `i == paf->query_end' failed
#1476
macmanes
opened
2 months ago
2
A value this high likely means your data is too diverse to construct a useful pangenome graph from.
#1475
ld9866
closed
2 months ago
2
How to use a GPU to run cactus-pangenome
#1474
jwli-code
closed
2 months ago
1
TypeError issue in minigraph construct
#1473
NyagaM
closed
2 months ago
1
MAF sequence names
#1472
austinchipps
opened
2 months ago
2
Failed job cactus_consolidate
#1471
jallen73
opened
2 months ago
1
Long reads mapping - tutorial
#1470
leone93
opened
2 months ago
1
How do I create d2 d8 d10 filtered graph pangenomes from a clip graph pangenome? My steps might be incorrect.
#1469
zhangyixing3
closed
3 months ago
3
PBS PRO - workflow
#1468
fgualdr
opened
3 months ago
1
add check for empty fasta header
#1467
glennhickey
closed
3 months ago
0
stderr=FAILURE: bad fasta character
#1466
macmanes
opened
3 months ago
8
toil issuing too many jobs at a time
#1465
macmanes
opened
3 months ago
4
cactus-graphmap-split taking a long time - is this expected?
#1464
bhdobrin
opened
3 months ago
2
CDS
#1463
aebaci
opened
3 months ago
2
Locations When Using cactus-hal2maf
#1462
parsonsrachel
closed
3 months ago
1
[Experimental] Allow self-alignment in pangenome reference
#1461
glennhickey
closed
1 month ago
0
Minigraph-cactus VCF has overlapping variants after left align
#1460
Han-Cao
opened
3 months ago
4
[experimental] FastGA support
#1459
glennhickey
opened
3 months ago
2
Segmental duplications
#1458
jonahcullen
opened
3 months ago
1
Error in cactus-graphmap-join : ['vg clip -sS - -P CamPar;] exited 141: stderr=vg: invalid option -- 'S'
#1457
MatteoSebastianelli
closed
3 months ago
1
read input data (listed in seqfile) from local directory, not web location (url)?
#1456
bhdobrin
closed
3 months ago
2
HAL to vg for SV calling, vg index Assertion `idx < this->size()' failed
#1455
IsaacDiaz026
opened
3 months ago
1
Mapping settings
#1454
aaaniich
opened
3 months ago
0
ancestral reconstructed
#1453
bighawkin
opened
3 months ago
2
prep release 2.9.0
#1452
glennhickey
closed
3 months ago
0
Scaling improvements in Cactus alignment stage for high-depth pangenomes.
#1451
glennhickey
closed
3 months ago
0
Alt nodes
#1450
aaaniich
closed
3 months ago
0
How to obtain the evolutionary order of root during merge hal file
#1449
seo-ky
opened
3 months ago
1
update to latest taffy
#1448
glennhickey
closed
3 months ago
0
unrecognized arguments: --maskAlpha
#1447
aaaniich
closed
3 months ago
4
Faster clipping tools
#1446
glennhickey
closed
4 months ago
0
Cap number of minigraph construction batches
#1445
glennhickey
closed
4 months ago
0
error cactus-align
#1444
anamatgu
opened
4 months ago
1
unrecognized arguments: --bigChain
#1443
AurelieHintermann
closed
4 months ago
1
update abpoa to latest release: v1.5.2
#1442
glennhickey
closed
4 months ago
0
disable outgroup computation for pangenomes
#1441
glennhickey
closed
4 months ago
0
Introduce seqfile technology to cactus_consolidated
#1440
glennhickey
closed
4 months ago
1
Obtain node PAV, ID and fasta.
#1439
caonetto
closed
4 months ago
0
Divide minigraph construction into chunks
#1438
glennhickey
closed
4 months ago
0
Help parameterizing seqfile
#1437
desmodus1984
opened
4 months ago
1
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