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Clinical-Genomics-Lund
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SomaticPanelPipeline
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present LOH
#71
ViktorHy
opened
3 weeks ago
0
Add flag/profile for QC-only runs for tumor samples
#70
alkc
opened
3 weeks ago
0
Bugfix/sample seqtk
#69
sailepradh
closed
1 month ago
0
Sampling issue with seqtk
#68
sailepradh
opened
1 month ago
0
Tnscope problem with the insertion AF and AD calcuation
#67
sailepradh
opened
3 months ago
0
Features/idsnp qc
#66
sailepradh
opened
4 months ago
1
Incorrect Handling of Contamination Values
#65
ramsainanduri
closed
4 months ago
1
Processes Fail to Execute When 'purity' Field Is Empty in CSV Input
#64
ramsainanduri
opened
4 months ago
0
Fix cnv for Myeloid profile
#63
ramsainanduri
opened
4 months ago
0
Finalizing Myeloid profile
#62
ramsainanduri
opened
4 months ago
0
coyote cli preparations
#61
ViktorHy
closed
4 months ago
4
corrected faulty header, needed for pysam
#60
ViktorHy
closed
4 months ago
0
Add support for Pindel
#59
ramsainanduri
opened
5 months ago
0
Add readthedocs
#58
ramsainanduri
opened
5 months ago
0
Increase Sampling Limit from 50M to 75M for Solid & PARP workflow
#57
ramsainanduri
closed
5 months ago
1
ID_SNPs based sample identification
#56
sailepradh
opened
5 months ago
0
Changed pgx csv dir
#55
ramsainanduri
closed
6 months ago
0
Cdm qc bug fix
#54
ramsainanduri
closed
6 months ago
0
Fixed bam names in pgx csv
#53
ramsainanduri
closed
6 months ago
0
CMD QC import
#52
ramsainanduri
closed
6 months ago
1
set time limit to 2hrs for genefuse
#51
ramsainanduri
closed
6 months ago
0
Dsl2 hg38 ref fix
#50
ramsainanduri
closed
7 months ago
0
Illegal division by zero at find_contaminant.pl
#49
ramsainanduri
closed
7 months ago
0
Fix HG38 (masked) reference files to support all the profiles
#48
ramsainanduri
closed
7 months ago
0
PGX Module: CSV and Shell Script Creation
#47
ramsainanduri
closed
7 months ago
0
Generate a CSV input file for the Pharmacogenomics (Pgx) pipeline within the Solid profile.
#46
ramsainanduri
closed
7 months ago
0
Tests for different subworkflows
#45
sailepradh
opened
9 months ago
0
Increment SampleId by one only upon an exact match in the database.
#44
ramsainanduri
closed
9 months ago
0
Increment SampleId by one only upon an exact match in the database.
#43
ramsainanduri
closed
8 months ago
0
Appending groupID with 'p' for the paired vcf
#42
ramsainanduri
closed
9 months ago
3
Append 'p' to Group ID in Paired Mode for Segregation of Sample VCF Files
#41
ramsainanduri
closed
9 months ago
0
Bugfix: fixed publishDir in the configs for the output files with mul…
#40
ramsainanduri
closed
9 months ago
0
Bug: Publishing Files Fails When Multiple Patterns Are Defined
#39
ramsainanduri
closed
9 months ago
0
Modularized configs and readable code structure
#38
ramsainanduri
closed
10 months ago
5
CNV import to coyote as JSON. Pythonize the import
#37
ViktorHy
closed
4 months ago
0
DSL2 live version for PARP
#36
ViktorHy
closed
9 months ago
0
vcfanno_anno BUG FIX:
#35
ramsainanduri
closed
10 months ago
1
Markgermline rank
#34
ViktorHy
closed
3 months ago
2
freebayes multi-allelic variants dissapear
#33
ViktorHy
opened
10 months ago
1
Bug: fix versions for vcfanno_linux64
#32
ramsainanduri
closed
10 months ago
0
Fix merging cnvs
#31
ViktorHy
closed
10 months ago
1
VEP produces bugged CSQ-fields
#30
ViktorHy
opened
11 months ago
0
save all qc in json
#29
ViktorHy
opened
11 months ago
1
Melt updates const
#28
ViktorHy
closed
10 months ago
1
Add stub blocks
#27
ramsainanduri
closed
11 months ago
0
Added Stubs and Versions
#26
ramsainanduri
closed
11 months ago
1
Create a json import of CNVs
#25
ViktorHy
opened
11 months ago
2
Automatic download/install singularity
#24
ViktorHy
opened
11 months ago
1
Fix merging cnvs
#23
ViktorHy
closed
11 months ago
0
Testing suites
#22
ViktorHy
opened
11 months ago
0
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