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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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#217
colindaven
closed
2 years ago
1
`pggb` 0.4.0: sync docker/singularity and bioconda
#216
AndreaGuarracino
closed
2 years ago
0
PGGB discarding SNPs and Small InDels
#215
VLoegler
closed
2 years ago
4
smoothxg: Command terminated by signal 4
#214
VLoegler
closed
2 years ago
3
How to understand the long range links?
#213
Yutang-ETH
closed
1 year ago
5
Update `odgi` (in `smoothxg`) to avoid getting too big images with `odgi draw`
#212
AndreaGuarracino
closed
2 years ago
0
Add variant decomposition (with `vcfbub` and `vcfwave`)
#211
AndreaGuarracino
closed
2 years ago
0
wfmash refreshy
#210
ekg
closed
2 years ago
1
expose SPOA/abPOA and local/global mode
#209
AndreaGuarracino
closed
2 years ago
0
Flag could not be matched: temp-dir
#208
Yutang-ETH
closed
2 years ago
3
Crazy up
#207
ekg
closed
2 years ago
1
manage fixed graph `--resume`
#206
AndreaGuarracino
closed
2 years ago
0
Manage `--resume` more broadly
#205
AndreaGuarracino
closed
2 years ago
0
CPANG22: add additional tools in the docker image
#204
AndreaGuarracino
closed
2 years ago
0
Mapping k-mers and contigs to pangenome graph
#203
soungalo
opened
2 years ago
1
update smoothxg
#202
subwaystation
closed
2 years ago
0
Sparsify mappings
#201
ekg
closed
2 years ago
0
Error with the __glibc package when installing
#200
Overcraft90
closed
2 years ago
5
seqwish std::invalid_argument error
#199
Boer223
closed
2 years ago
11
resolve #195 wfmash mapping dropout issue
#198
ekg
closed
2 years ago
0
`--temp-dir` for specifying a directory for temporary files
#197
AndreaGuarracino
closed
2 years ago
0
gsl dependencies issue in conda package
#196
soungalo
closed
2 years ago
11
Lack of alignment
#195
jia-wu-feng
closed
2 years ago
12
Docs
#194
subwaystation
closed
2 years ago
0
force MultiQC version 1.11 in Dockerfile
#193
subwaystation
closed
2 years ago
0
Better handling of the temporary directory
#192
AndreaGuarracino
closed
2 years ago
0
Tutorial with nucmer-based variant evaluation
#191
AndreaGuarracino
closed
2 years ago
1
DockerHub
#190
AndreaGuarracino
closed
2 years ago
0
bumb smoothxg to rPG-SGD
#189
subwaystation
closed
2 years ago
0
expose `-F, --mash-kmer-thres`
#188
AndreaGuarracino
closed
2 years ago
0
Pggb with gigabase-sized contigs - out of memory
#187
agolicz
opened
2 years ago
36
How to extract the non-backbone reference sequences from pggb graph?
#186
biozzq
opened
2 years ago
5
output only one `final` graph
#185
AndreaGuarracino
closed
2 years ago
0
Improve the community detection
#184
AndreaGuarracino
closed
2 years ago
0
Handle `-n` differences between` pggb` and `wfmash`
#183
AndreaGuarracino
closed
2 years ago
0
smoothxg terminated by signal 6
#182
petersudmant
closed
2 years ago
5
match sparsification
#181
ekg
closed
2 years ago
0
cmake-fixed smoothxg
#180
AndreaGuarracino
closed
2 years ago
0
added singularity instructions
#179
petersudmant
closed
2 years ago
0
Update all tools with tuned and tweaked `CMakeLists.txt` files
#178
AndreaGuarracino
closed
2 years ago
0
Divergence estimation tutorial
#177
AndreaGuarracino
closed
2 years ago
0
how to handle the assembled contigs that cannot be aligned to the backbone reference genome?
#176
biozzq
opened
2 years ago
6
docs: explaining sequence symbols
#175
subwaystation
closed
2 years ago
0
wflign PNG for wfmash docs
#174
subwaystation
closed
2 years ago
0
add timer to gfaffix
#173
subwaystation
closed
2 years ago
0
use `bgzip` for compressing VCF files
#172
AndreaGuarracino
closed
2 years ago
0
linear visualization by reference
#171
jia-wu-feng
closed
2 years ago
2
`PGGB recommendation`: community detection for sequence clustering
#170
AndreaGuarracino
closed
2 years ago
0
example of data preparation with E. coli, following PanSN specification
#169
AndreaGuarracino
closed
2 years ago
0
More Documentation
#168
subwaystation
closed
2 years ago
1
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