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uclahs-cds
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pipeline-call-NonCanonicalPeptide
Nextflow pipeline to call non-canonical peptides as custom databases for proteogenomic analysis
https://automatic-adventure-o4l96o9.pages.github.io/
GNU General Public License v2.0
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Set `ucla_cds` to `false` as default
#121
zhuchcn
closed
3 days ago
0
Resource issues
#120
shubham1637
opened
4 days ago
10
Bump external/nextflow-config from `bc3f67e` to `23b7b4e`
#119
dependabot[bot]
opened
2 months ago
0
Bump external/nextflow-config from `bc3f67e` to `a4e99e0`
#118
dependabot[bot]
closed
2 months ago
1
Bump external/nextflow-config from `bc3f67e` to `2127286`
#117
dependabot[bot]
closed
4 months ago
1
Update dependabot to group common submodules
#116
nwiltsie
closed
5 months ago
0
Bump external/nextflow-config from `bc3f67e` to `be1eaf5`
#115
dependabot[bot]
closed
5 months ago
1
Fix `generate_args`
#114
zhuchcn
closed
5 months ago
0
fix file name collision of VEP files
#113
zhuchcn
closed
5 months ago
0
Fix issue when `novel_orf_peptide` and `alt_translation_peptide` are not specified.
#112
zhuchcn
closed
5 months ago
0
Group input VEP files by `source`
#111
zhuchcn
closed
5 months ago
0
Bump external/nextflow-config from `f3448ac` to `e703579`
#110
dependabot[bot]
closed
5 months ago
1
Bump external/nextflow-config from `f3448ac` to `795384d`
#109
dependabot[bot]
closed
6 months ago
1
Upgrade to latest static analysis Action
#108
nwiltsie
closed
6 months ago
0
Bump external/nextflow-config from `f3448ac` to `af6a606`
#107
dependabot[bot]
closed
6 months ago
1
Enable dependabot to keep submodules up-to-date
#106
nwiltsie
closed
6 months ago
1
Czhu update
#105
zhuchcn
closed
7 months ago
0
Add schema
#104
zhuchcn
closed
7 months ago
0
Standardize process names
#103
zhuchcn
closed
7 months ago
0
Update PR template
#102
zhuchcn
closed
7 months ago
0
Add documentation site using gh-pages
#101
zhuchcn
closed
7 months ago
0
Use standardized UCLA-CDS specific resources allocation
#100
zhuchcn
closed
7 months ago
0
Standardize output directory
#99
zhuchcn
opened
7 months ago
1
Add params schema
#98
zhuchcn
closed
7 months ago
0
Standardize process names
#97
zhuchcn
closed
7 months ago
2
added *_peptide_table.txt output
#96
zhuchcn
closed
7 months ago
0
Added --timeout-seconds to call_variant
#95
zhuchcn
closed
8 months ago
0
Autofix broken Confluence links
#94
nwiltsie
closed
9 months ago
0
Update broken Confluence links
#93
nwiltsie
closed
9 months ago
0
Update CI/CD image
#92
nwiltsie
closed
1 year ago
0
set `filter_fasta` to false by default
#91
zhuchcn
closed
1 year ago
8
params.filterFasta namespace is required even if `filter_fasta = false`
#90
lydiayliu
closed
1 year ago
1
New parameters added for sec, w2f and mnv
#89
zhuchcn
closed
1 year ago
0
Update the SVG or add a new one to explain the postprocessing steps
#88
zhuchcn
opened
1 year ago
0
Add callNoncoding and callAltTranslation
#87
zhuchcn
closed
7 months ago
0
Add support for alt translation peptides
#86
zhuchcn
closed
1 year ago
2
Arguments added to callVairant
#85
zhuchcn
closed
1 year ago
0
Not possible to set `verbose-level` for `callVariant`
#84
lydiayliu
closed
1 year ago
0
noncoding peptides not passed to mergeFasta
#83
zhuchcn
closed
1 year ago
0
Merged and Variant summary files mix up?
#82
lydiayliu
closed
1 year ago
4
Fix splitFasta output dir
#81
zhuchcn
closed
1 year ago
11
Are split files filtered?
#80
lydiayliu
closed
1 year ago
5
update mopepgen to 0.11.3
#79
zhuchcn
closed
1 year ago
0
fix rMATs -> rMATS
#78
zhuchcn
closed
1 year ago
2
`parseRMATS` results not passed to `callVariant`?
#77
lydiayliu
closed
1 year ago
2
bump mpg to 0.10.0
#76
lydiayliu
closed
2 years ago
0
update moPepGen version to 0.9.1
#75
zhuchcn
closed
2 years ago
0
resources config files added for F16, F32, F72, and M64
#74
zhuchcn
closed
2 years ago
5
Resource config files need to be included
#73
zhuchcn
closed
2 years ago
0
update mopepgen to 0.9.0
#72
zhuchcn
closed
2 years ago
1
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