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snakemake-workflows
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dna-seq-varlociraptor
A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, pedigree, populations) via the unified statistical model of Varlociraptor.
MIT License
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chore(master): release 5.0.0
#260
github-actions[bot]
closed
10 months ago
1
chore(master): release 4.2.0
#259
github-actions[bot]
closed
11 months ago
1
fix: allow using one sample in multiple groups
#258
dlaehnemann
closed
10 months ago
4
feat: allow umis in both paired end reads
#257
dlaehnemann
closed
11 months ago
0
chore: try large runner
#256
johanneskoester
closed
11 months ago
1
feat: update envs and wrappers
#255
FelixMoelder
closed
11 months ago
2
fix: fix github action
#254
FelixMoelder
closed
11 months ago
0
chore(master): release 4.1.0
#253
github-actions[bot]
closed
11 months ago
1
feat: Handle trimmed fastqs plus additional fixes
#252
FelixMoelder
closed
11 months ago
0
feat!: make annotations for candidate variant filtering configurable
#251
dlaehnemann
closed
11 months ago
1
fix: hide binned vaf
#250
FelixMoelder
closed
1 year ago
1
perf: update to varlociraptor 8.3
#249
johanneskoester
closed
1 year ago
0
chore(master): release 4.0.2
#248
github-actions[bot]
closed
1 year ago
1
fix: set id optional
#247
FelixMoelder
closed
1 year ago
0
chore(master): release 4.0.1
#246
github-actions[bot]
closed
1 year ago
1
perf: update to latest datavzrd
#245
johanneskoester
closed
1 year ago
0
fix: update varlociraptor
#244
FelixMoelder
closed
1 year ago
0
fix: observations plots
#243
FelixMoelder
closed
1 year ago
0
feat: update observation plot to horizontal stacked bars with annotation variable checkbox
#242
dlaehnemann
closed
1 year ago
0
fix: fix mixed up VEP and VEP-cache versions
#241
FelixMoelder
closed
1 year ago
0
feat: add binned vaf column for sorting by allele frequency
#240
FelixMoelder
closed
1 year ago
2
chore(master): release 4.0.0
#239
github-actions[bot]
closed
1 year ago
1
feat!: use lowercase for all header names in report tables
#238
FelixMoelder
closed
1 year ago
0
feat: add group-by-variant-oncoprint
#237
johanneskoester
opened
1 year ago
0
chore(master): release 3.24.3
#236
github-actions[bot]
closed
1 year ago
1
feat: use MANE+clinical for selecting representative transcripts
#235
johanneskoester
closed
1 year ago
0
fix: use annotated calls for unfiltered callsets
#234
FelixMoelder
closed
1 year ago
0
chore(master): release 3.24.2
#233
github-actions[bot]
closed
1 year ago
1
fix: preserve lost variants
#232
FelixMoelder
closed
1 year ago
0
Coding mutations in non-coding variants table
#231
sci-kai
opened
1 year ago
5
chore(master): release 3.24.1
#230
github-actions[bot]
closed
1 year ago
1
fix: update datavzrd to 2.18.5 (fixes for empty callsets)
#229
johanneskoester
closed
1 year ago
0
perf: use varlociraptor 8.1
#228
johanneskoester
closed
1 year ago
0
fix: several fixes
#227
FelixMoelder
closed
1 year ago
0
chore(master): release 3.24.0
#226
github-actions[bot]
closed
1 year ago
1
feat: Support new varlociraptor 8.0 observations
#225
FelixMoelder
closed
1 year ago
0
chore(master): release 3.23.1
#224
github-actions[bot]
closed
1 year ago
1
fix: fix vembrane aux
#223
FelixMoelder
closed
1 year ago
0
feat: fusion calling
#222
FelixMoelder
closed
4 months ago
1
feat: Improved handling of custom annotation fields
#221
FelixMoelder
closed
1 year ago
1
fix: require bcf index as input to rule filter_offtarget_variants
#220
dlaehnemann
closed
1 year ago
1
feat: support skipping of any annotation based filtering
#219
johanneskoester
opened
1 year ago
0
chore(master): release 3.23.0
#218
github-actions[bot]
closed
1 year ago
1
fix: update mark_duplicates to newest wrapper syntax
#217
user-tq
closed
1 year ago
7
modify the rule filter_offtarget_variants or fix_delly_calls
#216
user-tq
closed
1 year ago
7
may need to modify the rule mark_ duplicates
#215
user-tq
closed
1 year ago
2
fix: parenthesize combined filter expressions
#214
johanneskoester
closed
1 year ago
0
feat: handle umis
#213
FelixMoelder
closed
1 year ago
2
fix: use varlociraptor 6.0 with its new smart FDR control. This leads to improved filtration results with less false negatives
#212
johanneskoester
closed
1 year ago
0
chore(master): release 3.22.0
#211
github-actions[bot]
closed
1 year ago
1
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