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Clinical-Genomics-Lund
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nextflow_wgs
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annotsv if-statement fixes
#218
ViktorHy
closed
2 days ago
0
Test mimisbrunnr as a extra layer of clinical significance for CNVs
#217
ViktorHy
opened
3 days ago
2
Order of VCFs to SVDB merge not consistent between subsequent reruns of same sample
#216
alkc
opened
4 days ago
0
Downsample mito bams to prevent eklipse crashes
#215
alkc
opened
6 days ago
0
Add restart rules to processes
#214
alkc
opened
6 days ago
0
Add flag to only output BAM files
#213
alkc
opened
2 weeks ago
0
Add flag to stop pipeline when bam + qc has been generated
#212
alkc
opened
3 weeks ago
0
Optimizations 202407
#211
ViktorHy
closed
1 month ago
1
Custom intervals in update_bed.pl
#210
Jakob37
opened
1 month ago
4
Don't load cases with removed panels
#209
Jakob37
opened
1 month ago
0
Updated deploy script
#208
Jakob37
closed
1 month ago
4
modycf post verification updates
#207
Jakob37
closed
1 month ago
0
Restore GERP annotations
#206
alkc
opened
1 month ago
0
GERP annotations missing
#205
alkc
opened
1 month ago
0
Enable Chanjo2
#204
Jakob37
closed
2 months ago
0
Profile for solid tumors
#203
Jakob37
opened
2 months ago
0
Disable Chanjo2
#202
Jakob37
closed
2 months ago
0
Mody CF (clean)
#201
Jakob37
closed
2 months ago
2
Memory usage markdup and dnascope
#200
ViktorHy
opened
2 months ago
0
Iterating on mody cf
#199
Jakob37
closed
2 months ago
1
Mody-CF update
#198
Jakob37
closed
2 months ago
0
Control CPU / memory allocations from config
#197
Jakob37
opened
2 months ago
0
Update bed file to include custom intervals
#196
Jakob37
opened
3 months ago
0
D4 full coverage
#195
Jakob37
closed
3 months ago
1
Trim checklist template and add validation samples
#194
Jakob37
closed
3 months ago
1
D4 in yaml
#193
Jakob37
closed
3 months ago
0
Added GQ to format field of all individuals via filter_mutect2
#192
ViktorHy
closed
3 months ago
8
Verification
#191
Jakob37
closed
1 month ago
0
Revert "Verification"
#190
Jakob37
closed
4 months ago
0
added csv-file path to onComplete
#189
ViktorHy
closed
4 months ago
0
Overlapping inversions and deletions
#188
ViktorHy
opened
4 months ago
1
Chanjo2 middleman
#187
Jakob37
closed
4 months ago
0
Add rerun custom flag to bjorn+wgs to prevent re-upload into loqusdb
#186
Jakob37
opened
4 months ago
3
For onco, `default_gene_panels` are not included in `gene_panels` in the yaml output
#185
Jakob37
opened
4 months ago
0
myeloid-const fixes to match clarity reanalysis
#184
ViktorHy
closed
4 months ago
2
Add VEP111 annotations to rank models
#183
alkc
closed
4 months ago
0
WGS trio rank model misses `FILTER` PASS rule found in wgs SNV single rank model
#182
alkc
opened
4 months ago
0
Gnomad v4
#181
Jakob37
opened
4 months ago
0
Update rank models with new VEP consequence annotations
#180
alkc
opened
5 months ago
0
Streamline PR template
#179
alkc
closed
3 months ago
1
d4 coverage calculations into production ol' wgs
#178
Jakob37
closed
4 months ago
0
Update Gnomad SV version
#177
Jakob37
opened
5 months ago
0
Rank model updates for VEP 111
#176
alkc
closed
4 months ago
0
Dealing with committed lab IDs in mody cf
#175
Jakob37
opened
5 months ago
0
GQC issue
#174
Jakob37
closed
5 months ago
1
Load MT frequencies into loqusdb
#173
Jakob37
closed
2 months ago
2
Reproducibility issue within same sample/group due to order of inputs to SVDB_merge
#172
alkc
opened
5 months ago
1
GATK GQC always cast to int to prevent genmod from ignoring it
#171
alkc
closed
5 months ago
3
`GQC` encoded as `float` disables `GATK` caller penalty
#170
alkc
closed
5 months ago
0
Starting from bam with modified group/sample ids fails at `build_mitochondrial_qc_json`
#169
alkc
opened
5 months ago
1
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