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ekg
/
seqwish
alignment to variation graph inducer
MIT License
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Manage empty sequences in the fasta and removed mmmap_allocator dependency
#76
AndreaGuarracino
closed
3 years ago
0
remove an unused dep
#75
ekg
closed
3 years ago
0
fix segmentation fault with empty PAF files
#74
AndreaGuarracino
closed
3 years ago
0
added very safe test
#73
AndreaGuarracino
closed
3 years ago
0
update memory mapping to use madvise as before
#72
ekg
closed
3 years ago
0
Sanitize memory management and mmmulti
#71
ekg
closed
3 years ago
0
No L or C lines in gfa from minimap2 paf
#70
cistarsa
closed
2 years ago
2
seqwish output with simulated data
#69
egoltsman
opened
3 years ago
1
`vg msga` quite slow with 20 1Mb genomes
#68
bredelings
opened
4 years ago
4
Error processsing large PAF files from minimap2
#67
brettChapman
opened
4 years ago
23
Unable to compile seqwish
#66
joyeuxnoel8
closed
4 years ago
3
Differences between Seqwish and minigraph
#65
brettChapman
closed
1 year ago
3
raised a warning when PAF files have no CIGAR strings #61
#64
AndreaGuarracino
closed
4 years ago
1
resolve #55 by always upper-casing the input sequence
#63
ekg
closed
4 years ago
0
Using alignments from edyeet results in an edge-less graph
#62
egoltsman
closed
4 years ago
21
alignments without cigars should trigger errors or warnings
#61
ekg
closed
2 years ago
0
Seqwish does not transitively align through SNPs
#60
glennhickey
closed
4 years ago
4
checked duplicate ids in FASTA or FASTQ efficiently
#59
AndreaGuarracino
closed
4 years ago
0
Raised an error when two sequences with the same name are input (FASTA or FASTQ)
#58
AndreaGuarracino
closed
4 years ago
3
Question: How to recover "colors" from the graph?
#57
phiweger
opened
4 years ago
7
Reverse-strand alignments look messy sometimes
#56
glennhickey
closed
4 years ago
6
Clarify behaviour with softmasked sequence
#55
glennhickey
closed
4 years ago
2
little fix in the building guide, issue #51
#54
AndreaGuarracino
closed
4 years ago
0
High memory usage when using '-r 1'
#53
jmonlong
opened
4 years ago
1
Please release complete source code tarballs
#52
mr-c
closed
3 years ago
2
I can't install seqwish on any computer
#51
Flavia95
closed
4 years ago
2
more minor improvements to runtime
#50
ekg
closed
2 years ago
1
when indexing the node/path iitrees, close the writers to stop the writer thread
#49
ekg
closed
4 years ago
0
write GFA in parallel
#48
ekg
closed
4 years ago
0
tweaks to improve the parallelism of transclosure
#47
ekg
closed
4 years ago
0
easy ways to speed up large parallel runs
#46
ekg
opened
4 years ago
0
Improving runtime
#45
ekg
closed
4 years ago
0
Faster collection
#44
ekg
closed
4 years ago
0
Multithreads
#43
ekg
closed
4 years ago
0
implement min-repeat-distance filter
#42
ekg
closed
4 years ago
0
output repeat-max elided bases to improve runtime
#41
ekg
closed
4 years ago
1
reënable --repeat-max to prevent self-looping graph structures
#40
ekg
closed
4 years ago
5
Make range extension really respect orientation when considering sequence starts and ends
#39
ekg
closed
4 years ago
2
automatic docker generation
#38
SilasK
opened
4 years ago
1
bidirectional check for sequence termination during range extension
#37
ekg
closed
4 years ago
0
(core dumped) seqwish
#36
HaploKit
closed
4 years ago
19
two genome comprison
#35
YaoZhou89
opened
4 years ago
6
Tag new release and create Bioconda recipe
#34
heuermh
closed
4 years ago
12
remove some debugging statements from the transclosure
#33
ekg
closed
4 years ago
0
use submodules for source tree to avoid compile-time downloads
#32
ekg
closed
4 years ago
0
Union-find in parallel
#31
ekg
closed
4 years ago
0
Aborted (core dumped) when building graph from 8 yeast genomes
#30
subwaystation
closed
5 years ago
3
remove bsort
#29
ekg
closed
5 years ago
0
Length assertion exception during GFA generation.
#28
darcyabjones
opened
5 years ago
7
Some mmiitree
#27
ekg
closed
5 years ago
0
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