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tgen
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tempe
A container focused and streamlined iteration of the Phoenix pipeline
GNU General Public License v3.0
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Markdups time
#76
PedalheadPHX
opened
3 days ago
0
Update snpSniffer to include missing het
#75
denriquez
opened
2 weeks ago
0
Bwa mem walltime fix
#74
PedalheadPHX
opened
2 weeks ago
0
False Positive Region in MAFB
#73
ChristopheLegendre
opened
1 month ago
0
False Positive CCND1 Translocations Region
#72
ChristopheLegendre
opened
1 month ago
0
PySam read processing order and supplementary alignments issue
#71
ChristopheLegendre
opened
5 months ago
0
v1.2.2 release
#70
bryce-turner
closed
7 months ago
1
Fix 1.2.1 nuisances
#69
bryce-turner
closed
8 months ago
0
zcat vs pigz vs gzip
#68
PedalheadPHX
opened
8 months ago
0
Additional check for if the READGROUPS object contains an object
#67
bryce-turner
closed
9 months ago
0
Adding support for case where there aren't any readgroup level stats to push
#66
bryce-turner
closed
9 months ago
0
Vardict Chunk 4 Task Hitting Wall-Time for Genomes
#65
denriquez
closed
7 months ago
3
Modifications to interval 4
#64
bryce-turner
closed
9 months ago
3
Cleaned up stats2lims blocks and support for runbuilder level stat uploads
#63
bryce-turner
closed
9 months ago
1
Fixing 1.2.1 nuisances
#62
bryce-turner
closed
9 months ago
0
Genome Deepvariant postprocess_variants Memory Issue
#61
denriquez
closed
9 months ago
1
Database Version Update - Move to gnomAD v4
#60
PedalheadPHX
opened
10 months ago
0
Improving task control syntax for snpsniffer and RNA tasks
#59
bryce-turner
closed
11 months ago
0
Tempe v1.2.1
#58
bryce-turner
closed
11 months ago
0
Reverting to using ${JS_PIPELINE_PATH} as this avoids erroneous task identity changes between storage locations
#57
bryce-turner
closed
11 months ago
0
Bumping to deepvariant v1.6.0
#56
bryce-turner
closed
11 months ago
0
Platform Duplicate LIMS upload
#55
PedalheadPHX
closed
7 months ago
0
Annotate constitutional manta output with VEP
#54
bryce-turner
closed
12 months ago
0
Bugfix for a simple typo that was preventing consitutional gatk cnv from rendering - issue #51
#53
bryce-turner
closed
12 months ago
0
VEP annotation of Manta outputs from constitutional samples
#52
PedalheadPHX
closed
9 months ago
1
High resolution Copy number support for consitutional samples
#51
PedalheadPHX
closed
7 months ago
0
Bug fix for externally defined variables
#50
bryce-turner
closed
1 year ago
0
Update v1.2.0.md to include final release notes
#49
bryce-turner
closed
1 year ago
1
Version bump to v1.2.0
#48
bryce-turner
closed
1 year ago
0
Release v1.2.0
#47
bryce-turner
closed
1 year ago
0
Added support for external ichorCNA pon
#46
bryce-turner
closed
1 year ago
0
Adjustments before v1.2.0 release
#45
bryce-turner
closed
1 year ago
1
UMI Merge CPUS
#44
PedalheadPHX
closed
1 year ago
1
Samtools merge CPU
#43
PedalheadPHX
closed
1 year ago
1
Rare Edge case fix to deepvariant postprocess
#42
PedalheadPHX
closed
1 year ago
1
Output VEP cononical/pick/Mane
#41
PedalheadPHX
closed
1 year ago
2
Excessive CPU usage
#40
PedalheadPHX
closed
1 year ago
2
Parabricks version upgrade blocked
#39
PedalheadPHX
opened
1 year ago
0
Pileup chromosome 8 pairoscope
#38
fmadrid2
opened
1 year ago
1
UMI Stats Needed
#37
PedalheadPHX
closed
1 year ago
2
UMI stats file names
#36
PedalheadPHX
closed
1 year ago
0
UMI alignment workflow still has the potential for duplicates to exist that aren't marked
#35
bryce-turner
opened
1 year ago
0
Memory bump for lancet tumor_only
#34
fmadrid2
closed
1 year ago
0
Lancet Memory
#33
PedalheadPHX
closed
1 year ago
0
Optimized image builds and more
#32
bryce-turner
closed
1 year ago
0
Need to make this dynamic to support >40 BQ
#31
PedalheadPHX
closed
11 months ago
2
Initial bpure implementation
#30
bryce-turner
closed
1 year ago
0
Need approach to define ploidy status
#29
bryce-turner
opened
1 year ago
1
Initial CHIP workflow
#28
bryce-turner
closed
1 year ago
0
Stats output name not consistent - #1
#27
PedalheadPHX
closed
1 year ago
0
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