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nf-core
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rnavar
gatk4 RNA variant calling pipeline
https://nf-co.re/rnavar
MIT License
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temporary fix for #103
#104
bounlu
closed
1 year ago
1
`dev` version gets stuck at Launching step
#103
bounlu
opened
1 year ago
0
fix process name SNPEFF_SNPEFF
#102
bounlu
closed
1 year ago
1
fix process name for SNPEFF_SNPEFF
#101
bounlu
closed
1 year ago
1
fix process name
#100
bounlu
closed
1 year ago
0
Gunzipping before STAR alignment on NTFS
#99
jcdaneshmand
closed
1 year ago
1
FEAT: add annotation back
#98
maxulysse
closed
1 year ago
2
Important! Template update for nf-core/tools v2.10
#97
nf-core-bot
closed
1 year ago
2
Add `trimming` step
#96
bounlu
opened
1 year ago
0
Important! Template update for nf-core/tools v2.9
#95
nf-core-bot
closed
1 year ago
2
STAR_ALIGN error "Not a valid S3 file system provider file attribute view: java.nio.file.attribute.BasicWithKeyFileAttributeView"
#94
BurtonChia
opened
1 year ago
1
Singularity container retrieval failed
#93
hakobyansiras
opened
1 year ago
0
Genome Version: 20201 is INCOMPATIBLE with running STAR version: 2.7.9a
#92
meherpreethi777
opened
1 year ago
8
Important! Template update for nf-core/tools v2.8
#91
nf-core-bot
closed
1 year ago
1
GRCh38 gtf file being used even when custom gff file is supplied
#90
davidecarlson
opened
1 year ago
0
Pipeline test is failing
#89
davidecarlson
opened
1 year ago
2
MERGE TEMPLATE
#88
maxulysse
closed
1 year ago
1
`strandedness` field is unnecessary
#87
bounlu
opened
1 year ago
0
Add UMI spport
#86
bounlu
opened
1 year ago
0
ANNOTATE processes scheduled but not executed despite params.annotate_tool not null and skip_variantannotation = false
#85
PBMCHUGA
opened
1 year ago
2
ENSEMBLVEP fails after module update
#84
bounlu
opened
1 year ago
2
Warning about GATK4_HAPLOTYPECALLERGVCF
#83
bounlu
opened
1 year ago
1
SAMTOOLS_FAIDX can't locate singularity image
#82
PBMCHUGA
opened
1 year ago
9
Implementing the --AlignIntronMax option for STAR
#81
ChrisSwale
opened
1 year ago
1
Important! Template update for nf-core/tools v2.7.2
#80
nf-core-bot
closed
1 year ago
0
Important! Template update for nf-core/tools v2.7.1
#79
nf-core-bot
closed
1 year ago
1
Add a gvcf file generated by sample, and others minors changes (merge on exome.bed, option to choose the type exon/transcript/gene of studied feature in GTF).
#78
SarahMaman
closed
1 year ago
5
Single cell somatic mutations
#77
cutleraging
opened
1 year ago
1
Issue with FastQC
#76
jsangalang
opened
2 years ago
0
Download snpeff singularity image failed
#75
alienzj
closed
2 years ago
1
Prepared `STARIndex` folder is missing for `GATK/GRCh38`
#74
bounlu
opened
2 years ago
0
Important! Template update for nf-core/tools v2.6
#73
nf-core-bot
closed
1 year ago
1
NFCORE_RNAVAR:RNAVAR:SPLITNCIGAR:GATK4_SPLITNCIGARREADS error
#72
gianfilippo
opened
2 years ago
3
download_cache.nf not found
#71
gianfilippo
opened
2 years ago
3
Important! Template update for nf-core/tools v2.5.1
#70
nf-core-bot
closed
2 years ago
1
Important! Template update for nf-core/tools v2.5
#69
nf-core-bot
closed
2 years ago
1
Strandedness
#68
kunstner
opened
2 years ago
1
Error when running rnavar with --skip_intervallisttools option
#67
RaqManzano
opened
2 years ago
1
File name collision error
#66
Jokendo-collab
closed
10 months ago
4
Missing STAR index not created automaticaly
#65
kunstner
opened
2 years ago
5
Can't find template file dumpsoftwareversions.py
#64
jackkamm
closed
2 years ago
1
Optional filter out RNA editing variants
#63
ojziff
opened
2 years ago
0
Updated Zenodo DOI
#62
praveenraj2018
closed
2 years ago
1
Added Zenodo DOI badge
#61
praveenraj2018
closed
2 years ago
3
Bump version to v1.1.0dev
#60
praveenraj2018
closed
2 years ago
1
Summary metrics of haplotypecaller.filtered.vcf
#59
ojziff
opened
2 years ago
1
Added release date in CHANGELOG.md
#58
praveenraj2018
closed
2 years ago
1
Added the release date
#57
praveenraj2018
closed
2 years ago
1
Addressed the review comments
#56
praveenraj2018
closed
2 years ago
1
Genome files clashing
#55
ojziff
opened
2 years ago
1
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