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genomic-medicine-sweden
/
tomte
A nextflow pipeline for analysing expression and splicing in RNA seq data from rare disease patient
MIT License
12
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3
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Remove unnecessary tabix tabix modules in call variants subworkflow
#138
Lucpen
closed
5 months ago
0
fix GATKs ASEReadCounter
#137
Lucpen
closed
5 months ago
3
Crash in OUTRIDER in DROP in `DROP_CONFIG_RUN_AE` when running single sample
#136
Jakob37
closed
5 months ago
15
GATK's ASEReadCounter crash "More then one variant at position"
#135
Jakob37
closed
5 months ago
13
Add workflow that builds DROP database
#134
Lucpen
closed
1 month ago
0
Add subworkflow that downloads references
#133
Lucpen
closed
3 months ago
0
camelize drop output column names and update gnu-wget container
#132
Lucpen
closed
5 months ago
1
Give systematic naming to columns from DROP output
#131
Lucpen
closed
5 months ago
2
Add hgnc id to research output in DROP
#130
Lucpen
opened
5 months ago
1
fix bug allelic imbalance
#129
Lucpen
closed
5 months ago
2
Allelic imbalance output is empty
#128
Lucpen
closed
5 months ago
1
Adapt vcf to scout
#127
Lucpen
closed
6 months ago
1
Add tag in vcf
#126
jemten
closed
6 months ago
0
vcfs with only one variant per line so that they can be handled by Scout
#125
Lucpen
closed
6 months ago
1
Pass strand information correctly to DROP
#124
Lucpen
closed
1 month ago
0
Template update nf-core/tools version 2.14.1
#123
Lucpen
closed
6 months ago
1
Template update for nf-core/tools version 2.14.1
#122
Lucpen
closed
6 months ago
0
Update tools
#121
Lucpen
closed
6 months ago
2
Update nf-core template
#120
jemten
closed
6 months ago
1
FAI index input parameter
#119
arvindsundaram
closed
6 months ago
3
Update CODEOWNERS
#118
pbiology
closed
6 months ago
2
Merge pull request #116 from genomic-medicine-sweden/dev
#117
Lucpen
closed
7 months ago
1
Patch release 2.0.1 - Grinch
#116
Lucpen
closed
7 months ago
1
Patch Publish research file vep
#115
Lucpen
closed
7 months ago
1
Merge pull request #113 from genomic-medicine-sweden/dev
#114
Lucpen
closed
7 months ago
1
Release 2.0.0
#113
Lucpen
closed
7 months ago
3
feat prepare for release
#112
Lucpen
closed
7 months ago
1
Merge to master
#111
Lucpen
closed
7 months ago
2
Updated modules
#110
Lucpen
closed
7 months ago
1
removed vep_filters parameter will now be generated from clinical panel
#109
Lucpen
closed
7 months ago
1
changed parameter names from switch to skip
#108
Lucpen
closed
7 months ago
1
Make function to branches references into compressed or uncompressed
#107
Lucpen
closed
7 months ago
1
Update FastQC
#106
fellen31
closed
7 months ago
1
Reformatted prepare references subworkflow
#105
Lucpen
closed
7 months ago
1
feat add args to AE and AS
#104
Lucpen
closed
7 months ago
1
fixed asereadcounter
#103
Lucpen
closed
8 months ago
1
ASEREADCOUNTER mixes up samples
#102
Lucpen
closed
8 months ago
0
Adding meta
#101
Lucpen
closed
8 months ago
2
Added ci test with all switches off
#100
Lucpen
closed
8 months ago
1
Add an automatic test where all switches are off
#99
Lucpen
closed
8 months ago
0
Change all local modules so that references contain meta
#98
Lucpen
closed
8 months ago
0
fix switch subsampling and downsampling bug
#97
Lucpen
closed
8 months ago
2
switch for subsample does not work
#96
Lucpen
closed
8 months ago
0
Master
#95
Lucpen
closed
8 months ago
1
feat updated zenodo
#94
Lucpen
closed
8 months ago
1
Add zenodo
#93
Lucpen
closed
8 months ago
2
Merge pull request #87 from genomic-medicine-sweden/dev
#92
Lucpen
closed
8 months ago
1
feat updated zenodo
#91
Lucpen
closed
8 months ago
1
Add insert size calculation
#90
Lucpen
closed
8 months ago
1
Fix channels in the GATK subworkflow
#89
fellen31
closed
8 months ago
1
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