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nmdp-bioinformatics
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pipeline
Consensus assembly and allele interpretation pipeline.
GNU Lesser General Public License v3.0
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V1.4.0
#131
mhalagan
closed
8 years ago
0
fixed an issue with how the uuids were being loaded.
#130
mhalagan
closed
9 years ago
0
Changed the way the experiments were being taken from the files.
#129
mhalagan
closed
9 years ago
0
V1.3.5
#128
mhalagan
closed
9 years ago
0
V1.3.4
#127
mhalagan
closed
9 years ago
0
Rename the UUIDs
#126
mhalagan
opened
9 years ago
0
V1.3.3
#125
mhalagan
closed
9 years ago
0
Added zcat option for Linux machines and gzcat for macs.
#124
mhalagan
closed
9 years ago
1
Added text testing file.
#123
mhalagan
closed
9 years ago
1
V1.3.0
#122
mhalagan
closed
9 years ago
1
Made a slight chagne with how the new observed format is being loaded.
#121
mhalagan
closed
9 years ago
1
ngs-imgt-db
#120
mhalagan
closed
9 years ago
1
V1.2.2
#119
mhalagan
closed
9 years ago
1
Fixed issue that was caused by using different versions of perl! Adde…
#118
mhalagan
closed
9 years ago
1
V1.2.0
#117
mhalagan
closed
9 years ago
1
V1.1.1
#116
mhalagan
closed
9 years ago
1
Package validation code and dependencies for installation to Docker
#115
ghost
closed
9 years ago
0
Added bed reformatted versions of regions files
#114
ckennedy-nmdp
closed
9 years ago
1
Update validation report
#113
mhalagan
closed
9 years ago
1
Update report
#112
mhalagan
closed
9 years ago
4
Consensus filtering
#111
ckennedy-nmdp
closed
9 years ago
2
Separate DRB1 from DRB3,4,5 top hits
#110
ybolon-nmdp
opened
9 years ago
0
Request to version the pipeline and coordinate with ngs-tools release and samtools release
#109
ybolon-nmdp
opened
9 years ago
0
Updated pipeline/samtools combo produces empty vcf output
#108
ybolon-nmdp
opened
9 years ago
2
Upgrade to samtools v1.1
#107
ckennedy-nmdp
closed
9 years ago
2
Add 2015 to copyright years
#106
ghost
closed
9 years ago
1
Ngs validation report
#105
mhalagan
closed
9 years ago
0
Interpretation validation should compare against allele codes and GL Strings
#104
ghost
closed
9 years ago
1
Add genomic regions for KIR2DL1 gene features
#103
ckennedy-nmdp
closed
9 years ago
2
Change reference variables to GRCh38 with no alternative assemblies
#102
ckennedy-nmdp
closed
9 years ago
1
Add genomic coordinates for Dave's KIR-2DL1 gene features
#101
ckennedy-nmdp
closed
9 years ago
2
Remove observed results, should be generated from smoke test
#100
ckennedy-nmdp
closed
9 years ago
2
SSAKE should be installed from homebrew
#99
ghost
closed
9 years ago
1
Use /opt/ngs-tool/ for default TOOLDIR
#98
ghost
closed
9 years ago
1
Default TOOLDIR should be /opt/ngs-tools
#97
ghost
closed
9 years ago
0
Add expected results
#96
ckennedy-nmdp
closed
9 years ago
1
Removing crossvalidate.groovy, fixes #92
#95
ghost
closed
9 years ago
1
Add compressed test data
#94
ckennedy-nmdp
closed
9 years ago
1
Add raw test data
#93
ckennedy-nmdp
closed
9 years ago
1
Deprecate crossvalidate.groovy for ngs-validate-interpretation
#92
ghost
closed
9 years ago
1
Add regions and smoke-test configuration files to tutorial/
#91
ckennedy-nmdp
closed
9 years ago
1
Removing splice-bam.groovy, fixes #89
#90
ghost
closed
9 years ago
2
Deprecate splice-bam.groovy for ngs-filter-consensus
#89
ghost
closed
9 years ago
0
Add cross-validation script
#88
ckennedy-nmdp
closed
9 years ago
0
Add filtering and interpretation script
#87
ckennedy-nmdp
closed
9 years ago
5
Remove soft-clipped sequences
#86
ckennedy-nmdp
closed
9 years ago
0
Fix for DPB1 typo
#85
ghost
closed
9 years ago
1
splice-bam.groovy must remove soft-clips in aligned contigs
#84
ckennedy-nmdp
closed
9 years ago
1
Increasing mean coverage from 100x to 1500x
#83
ghost
closed
9 years ago
1
Add option to filter consensus (cDNA) sequences by ouputting the first p...
#82
ckennedy-nmdp
closed
9 years ago
0
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