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cnr-ibba
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nf-resequencing-mem
Nextflow resequencing pipeline with bwa-mem and freebayes
MIT License
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:bookmark: release v0.6.2
#79
bunop
opened
2 weeks ago
1
:arrow_up: upgrade markduplicate step
#78
bunop
closed
2 weeks ago
1
:bug: markduplicates has issues with cram files
#77
bunop
opened
3 weeks ago
1
:boom: add vcfallelicprimitive step
#76
bunop
opened
2 months ago
0
:bookmark: release v0.6.1
#75
bunop
closed
3 months ago
1
:zap: Optimize `samtools/depth` step
#74
bunop
closed
3 months ago
1
:zap: optimize `samtools/depth` step
#73
bunop
closed
3 months ago
0
:zap: replace `bwa` with `bwa-mem2` modules
#72
bunop
opened
3 months ago
0
:zap: replace `picard/markduplicates` with `samtools/markdup`
#71
bunop
opened
3 months ago
0
:zap: replace `picard/markduplicates` with `sambamba/markdup`
#70
bunop
closed
3 months ago
1
:arrow_up: upgrade modules
#69
bunop
closed
3 months ago
1
:wrench: configure MultiQC analysis
#68
bunop
closed
4 months ago
1
:sparkles: Annotate VCF file with SnpEff
#67
bunop
closed
4 months ago
1
Issue 9.1
#66
lazzarib
closed
4 months ago
2
:heavy_plus_sign: switch to nf-validation plugin
#65
bunop
opened
4 months ago
0
:arrow_up: upgrade modules
#64
bunop
closed
3 months ago
0
:sparkles: deal with CRAM alignments
#63
bunop
closed
4 months ago
1
:bookmark: release v0.6.0
#62
bunop
closed
3 months ago
1
:construction_worker: update linting workflows
#61
bunop
closed
4 months ago
1
:wrench: configure MultiQC analysis
#60
bunop
closed
3 months ago
0
:sparkles: Annotate VCF file with SnpEff
#59
bunop
closed
3 months ago
0
:construction_worker: update CI system
#58
bunop
closed
3 months ago
0
:zap: Add RG in alignment step
#57
bunop
closed
3 months ago
0
:fire: can samtools/index be removed
#56
bunop
closed
3 months ago
0
:sparkles: use MultiQC with all supported tools
#55
bunop
closed
7 months ago
1
:bookmark: pipeline release v0.5.2
#54
bunop
closed
7 months ago
1
:sparkles: use MultiQC with all supported tools
#53
bunop
closed
7 months ago
0
:arrow_up: upgrade module dependencies
#52
bunop
closed
7 months ago
2
:sparkles: check that reads IDs are unique
#51
bunop
closed
8 months ago
1
:bookmark: pipeline release v0.5.1
#50
bunop
closed
8 months ago
1
:arrow_up: upgrade module dependencies and test for `-stub` option
#49
bunop
closed
7 months ago
0
:green_heart: update and solve issues with CI system
#48
bunop
closed
8 months ago
1
:sparkles: check that reads IDs are unique
#47
bunop
closed
8 months ago
0
:bug: update pipeline to support latest nf-core/tools
#46
bunop
closed
8 months ago
0
:zap: call freebayes in different processes
#45
bunop
closed
1 year ago
1
:zap: call freebayes in different processes
#44
bunop
closed
1 year ago
0
:bookmark: pipeline release v0.5.0
#43
bunop
closed
1 year ago
1
:bookmark: release this pipeline to the public
#42
bunop
closed
1 year ago
0
:zap: split chromosome relying on BAM size while running freebayes
#41
bunop
closed
1 year ago
0
:sparkles: support for --help command and parameters check
#40
bunop
closed
1 year ago
1
:sparkles: normalize VCF file
#39
bunop
closed
1 year ago
1
:wrench: update pipeline limits
#38
bunop
closed
1 year ago
0
:bookmark: pipeline release v0.4.3
#37
bunop
closed
1 year ago
1
:bug: check_samplesheet can't detect header in certain conditions
#36
bunop
closed
1 year ago
1
:boom: install modules with latest nf-core
#35
bunop
closed
1 year ago
2
:arrow_up: upgrade module dependencies
#34
bunop
closed
1 year ago
0
:sparkles: normalize VCF file
#33
bunop
closed
1 year ago
0
:bug: solve linting issues
#32
bunop
closed
1 year ago
0
:bug: check_samplesheet can't detect header in certain conditions
#31
bunop
closed
1 year ago
0
:sparkles: support for --help command and parameters check
#30
bunop
closed
1 year ago
0
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