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maize-genetics
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phg_v2
Practical Haplotype Graph (PHG) version 2
https://phg.maizegenetics.net/
Apache License 2.0
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ref-range-fasta command
#257
tcasstevens
opened
17 hours ago
1
Add checksum column for reference range table
#256
btmonier
opened
20 hours ago
1
add graph hash to kmer processing
#255
lynnjo
closed
1 day ago
1
[REQUEST]: Add a note suggesting _JAVA_OPTIONS to resolve OutOfMemoryError
#254
gtbil
closed
2 days ago
1
added missing flag to CreateMafVcf:createASMHvcfs()
#253
lynnjo
closed
1 day ago
1
[REQUEST]: create-maf-vcf --legacy-maf-file documentation for _1 and _2 files
#252
jesse-hill
opened
2 days ago
2
Update commands and VCF specification
#251
btmonier
closed
3 days ago
0
Checksum for ref seq at range
#250
tcasstevens
closed
3 days ago
1
Whole graph checksum
#249
tcasstevens
closed
4 days ago
1
Advanced imputation metrics
#248
lynnjo
closed
1 week ago
1
Prepare assembly fix tab and comment
#246
lynnjo
closed
2 weeks ago
1
Haplotype graph efficiency improvements
#245
tcasstevens
closed
2 weeks ago
1
[BUG]: Process Builder Error 132 in AGC compress / Illegal instruction (core dumped)
#244
pmvijar
closed
1 week ago
6
Kmer mapping diagnostic
#243
zrm22
closed
3 weeks ago
1
added ref and chosen haplotype len to ImputationMetrics
#242
lynnjo
closed
3 weeks ago
1
fixed issue with hvcf2gvcf batched export command
#241
lynnjo
closed
3 weeks ago
1
Haplotype graph efficiency improvements
#240
tcasstevens
closed
3 weeks ago
1
Add variant comparisons page
#239
btmonier
closed
4 weeks ago
0
Hvcf2gvcf update export
#238
lynnjo
closed
3 weeks ago
1
Impute disclaimer
#237
zrm22
closed
4 weeks ago
1
Update resequencing documentation
#236
btmonier
closed
1 month ago
3
[REQUEST]: imputation from VCF
#235
ClayBirkett
opened
1 month ago
0
Kmer mapping integration tests
#234
zrm22
closed
1 month ago
1
Changed data structure in contextToRange(). Was rangeSampleToChecksum…
#233
tcasstevens
closed
1 month ago
1
Create fasta from hvcf oom
#232
lynnjo
closed
1 month ago
1
Add "Citations" page
#231
btmonier
closed
1 month ago
0
Haplotype graph efficiency improvements
#230
lynnjo
closed
1 month ago
1
Kmer mapping diagnostic - Initial PR
#229
zrm22
closed
1 month ago
1
fixed errors in quick start for reseq pipeline doc
#226
lynnjo
closed
1 month ago
0
Update export vcf
#225
tcasstevens
closed
1 month ago
1
Samples list command
#224
lynnjo
closed
1 month ago
1
Resequencing haplotype vcf
#222
lynnjo
closed
1 month ago
1
Add showDefaultValues=true to clikt help messages
#221
tcasstevens
closed
2 months ago
1
[BUG]: Compatilibilty issue between the pipeline
#220
gsc74
closed
2 months ago
14
Remove optional parameters quick start
#219
tcasstevens
closed
2 months ago
3
initdb warning, updated yml file
#218
lynnjo
closed
2 months ago
2
Removing the option to have map-kmers hit multiple reference ranges.
#217
zrm22
closed
2 months ago
1
Updates to build_and_load.md Quick Start
#216
tcasstevens
closed
2 months ago
1
verify AGC files bug fix
#215
lynnjo
closed
2 months ago
1
Add reference file path
#214
btmonier
closed
2 months ago
0
Fix "Quick Start" parameters
#213
btmonier
closed
2 months ago
0
Create fasta from hvcf fix duplicate entries
#212
lynnjo
closed
3 months ago
1
Add PHG version retrieval method
#211
btmonier
closed
3 months ago
1
Add call-out for `create-ranges` command
#210
btmonier
closed
3 months ago
0
Try removing all references to obligatory conda environment
#209
dirkjanvw
opened
3 months ago
0
[REQUEST]: allow non-conda installation of dependencies
#208
dirkjanvw
closed
3 months ago
10
Handling gzipped file names correctly now. Also adding in a helper f…
#206
zrm22
closed
3 months ago
1
[BUG]: map-kmers does not fully strip file extension that includes .gz suffix
#205
matthewwiese
closed
3 months ago
3
change CliktCommands to use required() for required parameters
#204
tcasstevens
closed
3 months ago
3
Update maf to gvcf
#203
zrm22
closed
3 months ago
1
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