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seqan
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iGenVar
The official repository for the iGenVar project.
BSD 3-Clause "New" or "Revised" License
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[BENCHMARK] dataset comparison: cleanup plots
#245
Irallia
closed
1 year ago
1
[BENCHMARK] dataset comparison: new datasets
#244
Irallia
opened
1 year ago
1
Release 0.1.0
#243
Irallia
opened
2 years ago
0
[FEATURE] SNP and Indel calling
#242
Irallia
closed
2 years ago
1
[MISC] Use clang-format to format the cmake files.
#241
Irallia
closed
2 years ago
1
[BENCHMARKS] dataset comparison - simulate short read data with mason
#240
Irallia
closed
2 years ago
1
[MISC] Update biocpp-core and biocpp-io
#239
Irallia
closed
2 years ago
1
[BENCHMAKRS] Do some simulation benchmarks
#238
Irallia
closed
2 years ago
0
[INFRA] Switch to original biocpp-io submodule
#237
Irallia
closed
2 years ago
0
[INFRA] Switch to original biocpp-io submodule
#236
Irallia
closed
2 years ago
1
[INFRA] Update cmake version from 3.11.4 to 3.16.0
#235
Irallia
closed
2 years ago
2
Revert "[MISC] summarize `expand`s"
#234
Irallia
closed
2 years ago
0
[BENCHMAKRS] Add DEL and INS only plots for iGenVar only
#233
Irallia
closed
2 years ago
1
[BENCHMAKRS] clean up benchmarks
#232
Irallia
closed
2 years ago
0
[BENCHMARK] split truth set
#231
Irallia
closed
2 years ago
1
[MISC] Add refs
#230
Irallia
closed
2 years ago
1
[BENCHMAKRS] Dataset comparison - short reads
#229
Irallia
closed
2 years ago
1
[BENCHMARKS] Dataset comparison - long read - follow up 1
#228
Irallia
closed
2 years ago
1
SNP and Indel calling
#227
joergi-w
closed
2 years ago
2
[BENCHMARK] Add SV Amounts.
#226
Irallia
closed
2 years ago
1
[BENCHMARKS] Dataset comparison: vaquita LR
#225
Irallia
closed
2 years ago
5
Recheck TANDEM:DUPs
#224
Irallia
opened
2 years ago
0
[FIX] Readd removed if case
#223
Irallia
closed
2 years ago
1
[DOC] Update Workflow
#222
Irallia
closed
2 years ago
1
[TEST] Benchmarks: clean up
#221
Irallia
closed
2 years ago
1
[TEST] Benchmarks: update some plots new inv
#220
Irallia
closed
2 years ago
1
[MISC] Update seqan3 - stop using bio seqan3 version
#219
Irallia
closed
2 years ago
1
[MISC] Update SeqAn3 and use sharg parser
#218
Irallia
closed
2 years ago
2
deBruijn graph for haplotype calling
#217
joergi-w
closed
2 years ago
1
[FIX] Fix SVLEN
#216
Irallia
closed
2 years ago
1
[BUG] The commit 91ec8dc "Add iGenVar_SVLEN" brought a bug.
#215
Irallia
closed
2 years ago
0
[FIX] Remove unnecessary "Number" from ALT header lines
#214
Irallia
closed
2 years ago
1
[MISC] Update SeqAn3 after 3.2.0 Release
#213
Irallia
closed
2 years ago
1
iGenVar - Call Inversions
#212
Irallia
closed
2 years ago
0
[DOC] Add truth vcf, some split read INSs and INVs to the SAM file.
#211
Irallia
closed
2 years ago
1
[FEATURE] Call inversions via split read method
#210
Irallia
closed
2 years ago
1
[BENCHMARKS] dataset comparison long read enhancement
#209
Irallia
closed
2 years ago
3
[FIX] Add duplicated sequences to output and fix vcf output
#208
Irallia
closed
2 years ago
2
[BENCHMARK] Run parameter benchmarks with different input data and update them.
#207
Irallia
closed
2 years ago
3
Dependency managment
#206
Irallia
opened
2 years ago
0
[BENCHMARKS] Examine the calling results more closely.
#205
Irallia
opened
2 years ago
0
[FIX,BENCHMARK] Split input files into GRCh37 and GRCh38
#204
Irallia
closed
2 years ago
1
[BUG] Input files are based on GRCh37 (hg19) others on GRCh38 (hg38)
#203
Irallia
closed
2 years ago
0
[BENCHMARK] dataset comparison - add datasets and update scripts
#202
Irallia
closed
2 years ago
1
[BENCHMARK] dataset comparison igenvar only
#201
Irallia
closed
2 years ago
3
[FIX] Add the "chr" prefix of the ref name.
#200
Irallia
closed
2 years ago
8
[FIX] Interrupted BAMIT creation, which ends in an `cereal::Exception`.
#199
Irallia
closed
2 years ago
1
[BENCHMARK] Create folder structure
#198
Irallia
closed
2 years ago
1
iGenVar - [BENCHMARK] Create short & long read benchmarks
#197
Irallia
opened
2 years ago
0
[INFRA] Update cmake version from 3.11.4 to 3.22.2
#196
Irallia
opened
2 years ago
1
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