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uclahs-cds
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pipeline-recalibrate-BAM
Nextflow pipeline to perform Indel Realignment and Base Quality Score Recalibration
https://uclahs-cds.github.io/pipeline-recalibrate-BAM/
GNU General Public License v2.0
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Bump external/pipeline-Nextflow-config from `a4e99e0` to `23b7b4e` in the pipeline-submodules group
#84
dependabot[bot]
opened
3 weeks ago
0
Bump external/pipeline-Nextflow-module from `537da32` to `1cfa9fa` in the pipeline-submodules group
#83
dependabot[bot]
closed
1 month ago
1
Organizational and cleanup tweaks
#82
nwiltsie
closed
3 months ago
3
Bump the pipeline-submodules group across 1 directory with 2 updates
#81
dependabot[bot]
closed
3 months ago
1
Bump the pipeline-submodules group with 2 updates
#80
dependabot[bot]
closed
3 months ago
1
Use wildcards in dependabot submodule grouping
#79
nwiltsie
closed
3 months ago
2
Bump external/pipeline-Nextflow-config from `be1eaf5` to `2127286`
#78
dependabot[bot]
closed
3 months ago
1
Bump external/pipeline-Nextflow-module from `ef40c10` to `537da32`
#77
dependabot[bot]
closed
3 months ago
1
Use `methods.setup_process_afterscript()` for process logs
#76
nwiltsie
closed
4 months ago
3
Bump external/pipeline-Nextflow-config from `bc3f67e` to `be1eaf5`
#75
dependabot[bot]
closed
3 months ago
4
Group pipeline-Nextflow-* modules together for dependabot
#74
nwiltsie
closed
3 months ago
1
Resolve intervals when needed
#73
yashpatel6
closed
4 months ago
2
Bump external/pipeline-Nextflow-module from `4597ebc` to `ef40c10`
#72
dependabot[bot]
closed
4 months ago
1
Bump external/pipeline-Nextflow-config from `795384d` to `bc3f67e`
#71
dependabot[bot]
closed
4 months ago
2
Bump external/pipeline-Nextflow-config from `795384d` to `e703579`
#70
dependabot[bot]
closed
4 months ago
1
Bump external/pipeline-Nextflow-module from `9db08f0` to `4597ebc`
#69
dependabot[bot]
closed
4 months ago
1
Bump external/pipeline-Nextflow-config from `f3448ac` to `795384d`
#68
dependabot[bot]
closed
4 months ago
0
Upgrade to latest static analysis Action
#67
nwiltsie
closed
4 months ago
5
Bump external/pipeline-Nextflow-config from `f3448ac` to `af6a606`
#66
dependabot[bot]
closed
4 months ago
2
Update interval handling
#65
yashpatel6
closed
4 months ago
0
Final prep for publication
#64
nwiltsie
closed
5 months ago
0
Add requirements to README
#63
nwiltsie
closed
6 months ago
0
Implement refactored Nextflow test workflows
#62
nwiltsie
closed
5 months ago
0
Re-enable testing workflow after breaking changes
#61
nwiltsie
closed
5 months ago
1
recalibrate-BAM automatically uses 1000G indels
#60
bltsai-UCLA
opened
6 months ago
3
Fixup accidental push
#59
nwiltsie
closed
6 months ago
1
Release `v1.0.0`
#58
yashpatel6
closed
6 months ago
0
Release `v1.0.0`
#57
yashpatel6
closed
6 months ago
0
Bump external/pipeline-Nextflow-config from `1960eaa` to `f3448ac`
#56
dependabot[bot]
closed
6 months ago
2
Add Nextflow configuration regression tests
#55
nwiltsie
closed
7 months ago
1
BAM header filtering
#54
yashpatel6
opened
7 months ago
0
Add documentation action
#53
nwiltsie
closed
7 months ago
1
Dummy PR to test Nextflow config action
#52
nwiltsie
closed
7 months ago
0
Bump external/pipeline-Nextflow-config from `1960eaa` to `3ec7186`
#51
dependabot[bot]
closed
6 months ago
2
Bump external/pipeline-Nextflow-config from `1960eaa` to `da8e990`
#50
dependabot[bot]
closed
7 months ago
1
Bump external/pipeline-Nextflow-module from `b0b2798` to `9db08f0`
#49
dependabot[bot]
closed
6 months ago
5
Bump external/pipeline-Nextflow-config from `1960eaa` to `7e10f2c`
#48
dependabot[bot]
closed
8 months ago
1
Use store_object_as_json method to store parameters
#47
nwiltsie
closed
9 months ago
3
Remove local set_env and check_limits methods
#46
nwiltsie
closed
9 months ago
3
Allow input of recalibration tables
#45
yashpatel6
closed
9 months ago
3
Bump external/pipeline-Nextflow-config from `edfc2c2` to `1960eaa`
#44
dependabot[bot]
closed
9 months ago
2
GATK 4.5.0.0
#43
yashpatel6
opened
9 months ago
1
Bump external/pipeline-Nextflow-config from `c77aeca` to `edfc2c2`
#42
dependabot[bot]
closed
9 months ago
1
Bump external/pipeline-Nextflow-module from `4bc4336` to `b0b2798`
#41
dependabot[bot]
closed
9 months ago
0
Enable dependabot to update submodules
#40
nwiltsie
closed
9 months ago
3
Update flow diagram, add details to README
#39
nwiltsie
closed
9 months ago
0
Subdivide intervals without splitting?
#38
nwiltsie
closed
6 months ago
1
Update PR template
#37
nwiltsie
closed
10 months ago
1
Make output deterministic, add NFTest case
#36
nwiltsie
closed
10 months ago
5
Autofix broken Confluence links
#35
nwiltsie
closed
11 months ago
0
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